SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Selenoprotein I (Sel I)
| DESCRIPCIÓN | Homología parcial con Selenoproteína I (ausencia selenocisteína). 3(-):57461670...57436993. |
| SELENOPROFILES | Encontrada. Elección: Genewise. Se han predicho cuatro elementos SECIS: 1.(strand:- positions:57431997-57432100); 2.(strand:- positions:57431024-57431121); 3.(strand:- positions:57430821-57430924); 4.(strand:- positions:57429967-57430064) |
| SECISearch | Sin resultados. |
| COMENTARIOS | El alineamiento de las predicciones de Exonerate y Genewise obtuvieron el mismo score pero por defecto reportamos el alineamiento de Genewise. El multiple-alignment muestra una elevada homología con las Selenoproteínas I de otros organismos, pero no hay predicción de la Selenocisteína (tampoco la predice Selenoprofiles, aunque sí reporta este hit). Podríamos hipotetizar que el fragmento 3' del gen se ha delecionado en Meleagris gallopavo en un evento de duplicación. |
1. ALINEAMIENTO MÚLTIPLE DE TODOS LOS HOMÓLOGOS DE SELENODB
2. BEST PAIRWISE ALIGNMENT
4. RESULTADOS DEL Selenoprofiles
ALINEAMIENTO MÚLTIPLE DE TODOS LOS HOMÓLOGOS DE SELENODB
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=89, Nseq=9, Len=434
SPP00000015_1.0 MAGYEYVSPEQLAGFDKYKYSAVDTNPLSLYVMHPFWNTIVK----VFPTWLAPNLITFS
SPP00000015_1.0.3.exonerate ----------SIAGLDSRKYSAVDTNPLSVYVMQPIWNKIIK----IVPLWIAPNLLTFS
SPP00000015_1.0.3.genewise ------------------QYSAVDTNPLSVYVMQPIWNKIIK----IVPLWIAPNLLTFS
SPP00000111_1.0 MAGYEYVSPEQLSGFDKYKYSALDTNPLSLYIMHPFWNTIVKKKKQVFPTWLAPNLITFS
SPP00000111_1.0.3.exonerate ----KQISFKETSAILKYTYSAVDTNPLSVYVMQPIWNKIIKRKKEIVPLWIAPNLLTFS
SPP00000111_1.0.3.genewise ------------------QYSAVDTNPLSVYVMQPIWNKIIK----IVPLWIAPNLLTFS
SPP00000088_1.0 MGCMRYLSEAHLRGFERYKYSSIDTSFLSVYVMHPFWNYCVK----FVPKWLAPNVLTFV
SPP00000088_1.0.3.exonerate ---------------ECSKYSAVDTNPLSVYVMQPIWNKIIK----IVPLWIAPNLLTFS
SPP00000088_1.0.3.genewise ------------------QYSAVDTNPLSVYVMQPIWNKIIK----IVPLWIAPNLLTFS
**::**. **:*:*:*:** :* ..* *:***::**
SPP00000015_1.0 GFLLVVFNFLLMAYFDPDFYASAPGHK-HVPDWVWIVVGILNFVAYTLDGVDGKQARRTN
SPP00000015_1.0.3.exonerate GFVMILVNYFLISFYDWDYTASGTSPG-RVPTWVWLFSAFTTFCAYALDSIDGKHARRTQ
SPP00000015_1.0.3.genewise GFVMILVNYFLISFYDWDYTASGTSPG-RVPTWVWLFSAFTTFCAYALDSIDGKHARRTQ
SPP00000111_1.0 GFMLLVFNFLLLTYFDPDFYASAPGHK-HVPDWVWIVVGILNFAAYTLDGVDGKQARRTN
SPP00000111_1.0.3.exonerate GFVMILVNYFLISFYDWDYTASGTSPG-RVPTWVWLFSAFTTFCAYALDSIDGKHARRTQ
SPP00000111_1.0.3.genewise GFVMILVNYFLISFYDWDYTASGTSPG-RVPTWVWLFSAFTTFCAYALDSIDGKHARRTQ
SPP00000088_1.0 GFLMTVVNFILIAYYDWGFEAANSETGNTVPAWVWTVAAINILIYYNLDGMDGKQARRTG
SPP00000088_1.0.3.exonerate GFVMILVNYFLISFYDWDYTASGTSPG-RVPTWVWLFSAFTTFCAYALDSIDGKHARRTQ
SPP00000088_1.0.3.genewise GFVMILVNYFLISFYDWDYTASGTSPG-RVPTWVWLFSAFTTFCAYALDSIDGKHARRTQ
**:: :.*::*::::* .: *: . ** *** . .: : * **.:***:****
SPP00000015_1.0 SSTPLGELFDHGLDSWSCVYFVVTVYSIFGR--GSTGVSVFVLYLLLWVVLFSFILSHWE
SPP00000015_1.0.3.exonerate SSSPLGELFDHGLDSWATSIFALSFFSVCSRDNGKTGVSVYTMYMYLSIVLFNFMCSHWE
SPP00000015_1.0.3.genewise SSSPLGELFDHGLDSWATSIFALSFFSVCSRDNGKTGVSVYTMYMYLSIVLFNFMCSHWE
SPP00000111_1.0 SSTPLGELFDHGLDSWSCVYFVVTVYSIFGR--GPTGVSVFVLYLLLWVVLFSFILSHWE
SPP00000111_1.0.3.exonerate SSSPLGELFDHGLDSWATSIFALSFFSVCSRDNGKTGVSVYTMYMYLSIVLFNFMCSHWE
SPP00000111_1.0.3.genewise SSSPLGELFDHGLDSWATSIFALSFFSVCSRDNGKTGVSVYTMYMYLSIVLFNFMCSHWE
SPP00000088_1.0 TSGPLGELFDHGLDSYSAALIPIYLFSLFG----THDLPPIRMFFVIWNVFLNFYLTHVE
SPP00000088_1.0.3.exonerate SSSPLGELFDHGLDSWATSIFALSFFSVCSRDNGKTGVSVYTMYMYLSIVLFNFMCSHWE
SPP00000088_1.0.3.genewise SSSPLGELFDHGLDSWATSIFALSFFSVCSRDNGKTGVSVYTMYMYLSIVLFNFMCSHWE
:* ************:: : : .:*: . .:. ::: : *::.* :* *
SPP00000015_1.0 KYNTGILFLPWGYDISQVTIS---------FVYIVTAVVGVEAWYEPFLFNFLYRDLFTA
SPP00000015_1.0.3.exonerate KYNTGVLFLPWGYDLSQVVLI---------TAYLLTGIVGVEVWQKPFLFGYYITDALVI
SPP00000015_1.0.3.genewise KYNTGVLFLPWGYDLSQVVLI---------TAYLLTGIVGVEVWQKPFLFGYYITDALVI
SPP00000111_1.0 KYNTGVLFLPWGYDISQVTIS---------FVYIVTAVVGVEAWYEPFLFNFLYRDLFTA
SPP00000111_1.0.3.exonerate KYNTGVLFLPWGYDLSQVVLI---------TAYLLTGIVGVEVWQKPFLFGYYITDALVI
SPP00000111_1.0.3.genewise KYNTGVLFLPWGYDLSQVVLI---------TAYLLTGIVGVEVWQKPFLFGYYITDALVI
SPP00000088_1.0 KYNTGVMFLPWGYDFTMWGVS---------GMLFVATVFGPEMYR-FSIYGFTMANMFEF
SPP00000088_1.0.3.exonerate KYNTGVLFLPWGYDLSQVVLI---------TAYLLTGIVGVEVWQKPFLFGYYITDALVI
SPP00000088_1.0.3.genewise KYNTGVLFLPWGYDLSQVVSIYHSCFIFIFLTYLLTGIVGVEVWQKPFLFGYYITDALVI
*****::*******:: ::: :.* * : ::.: : :
SPP00000015_1.0 MIIGCALCVTLPMSLLNFFRSYKNNTLKLNSVYEAMVPLFSPCLLFILSTAWILWSPSDI
SPP00000015_1.0.3.exonerate LLIGFSLLLSFPQTLYNIHRAHLRKTLKNDSLYEGLLPLVSPLLLFMLLTVWVVLSPGNI
SPP00000015_1.0.3.genewise LLIGFSLLLSFPQTLYNIHRAHLRKTLKNDSLYEGLLPLVSPLLLFMLLTVWVVLSPGNI
SPP00000111_1.0 MIIGCALCVTLPMSLLNFFRSYKSNTLKHKSVYEAMVPFFSPCLLFTLCTVWILWSPSDI
SPP00000111_1.0.3.exonerate LLIGFSLLLSFPQTLYNIHRAHLRKTLKNDSLYEGLLPLVSPLLLFMLLTVWVVLSPGNI
SPP00000111_1.0.3.genewise LLIGFSLLLSFPQTLYNIHRAHLRKTLKNDSLYEGLLPLVSPLLLFMLLTVWVVLSPGNI
SPP00000088_1.0 VLIGSGMVSSHPIIARNIYLSYKNKTGKMRPMWEMLRPFFAFVWLFVITVVWSFFSRNDV
SPP00000088_1.0.3.exonerate LLIGFSLLLSFPQTLYNIHRAHLRKTLKNDSLYEGLLPLVSPLLLFMLLTVWVVLSPGNI
SPP00000088_1.0.3.genewise LLIGFSLLLSFPQTLYNIHRAHLRKTLKNDSLYEGLLPLVSPLLLFMLLTVWVVLSPGNI
::** .: : * *:. :: :* * .::* : *:.: ** : ..* . * .::
SPP00000015_1.0 LELHPRVFYFMVGTAFANSTCQLIVCQMSSTRCPTLNWLLVPLFLVVLVV---------N
SPP00000015_1.0.3.exonerate LAKQPRLFLWMVGVTFSNVICKVIICQMSSTQPELLHWFLFPLALVVYAA---------I
SPP00000015_1.0.3.genewise LAKQPRLFLWMVGVTFSNVICKVIICQMSSTQPELLHWFLFPLALVVYAA---------I
SPP00000111_1.0 LEIHPRIFYFMVGTAFANITCQLIVCQMSSTRCPTLNWLLLPLLLVVAAV---------I
SPP00000111_1.0.3.exonerate LAKQPRLFLWMVGVTFSNVICKVIICQMSSTQPELLHWFLFPLALVVYAA---------I
SPP00000111_1.0.3.genewise LAKQPRLFLWMVGVTFSNVICKVIICQMSSTQPELLHWFLFPLALVVYAA---------I
SPP00000088_1.0 INKEPRILWILYGTIFSNIACRLIVAQMSDTRCDAFNVLMWPLAATVGVCCFPYYQQVFD
SPP00000088_1.0.3.exonerate LAKQPRLFLWMVGVTFSNVIVSMFVV----------------------------------
SPP00000088_1.0.3.genewise LAKQPRLFLWMVGVTFSNVIVSMFVV----------------------------------
: .**:: : *. *:* :::
SPP00000015_1.0 LGV-ASYVESILLYTLTTAFTLAHIHYGVRVVKQLSSHFQIYPFSLRKPNSDULGMEEKN
SPP00000015_1.0.3.exonerate SGL-LGQAEEAVLGAFTALVTAAHVHYGICVGRQLSEHFNIYIFSLK-------------
SPP00000015_1.0.3.genewise SGL-LGQAEEAVLGAFTALVTAAHVHYGICVGRQLSEHFNIYIFSLK-------------
SPP00000111_1.0 VGAATSRLESALLYTLTAAFTLAHIHYGVQVVKQLSRHFQIYPFSLRKPNSDULGMEEQN
SPP00000111_1.0.3.exonerate SGL-LGQAEEAVLGAFTALVTAAHVHYGICVGRQLSEHFNIYIFSLK-------------
SPP00000111_1.0.3.genewise SGL-LGQAEEAVLGAFTALVTAAHVHYGICVGRQLSEHFNIYIFSLK-------------
SPP00000088_1.0 SDL-TSDTERWILYGLTIFSTLAHWHYGYGVVSEMCDHFHIRCFKVRKSSSQUSGSDITQ
SPP00000088_1.0.3.exonerate ----------------------------------------------M-------------
SPP00000088_1.0.3.genewise ----------------------------------------------M-------------
SPP00000015_1.0 -----------IGL
SPP00000015_1.0.3.exonerate -------------K
SPP00000015_1.0.3.genewise -------------K
SPP00000111_1.0 -----------IGL
SPP00000111_1.0.3.exonerate -------------K
SPP00000111_1.0.3.genewise -------------K
SPP00000088_1.0 LLQNNNKIKPLKSH
SPP00000088_1.0.3.exonerate -------------V
SPP00000088_1.0.3.genewise -------------V
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=99, Nseq=2, Len=399
SPP00000015_1.0 MAGYEYVSPEQLAGFDKYKYSAVDTNPLSLYVMHPFWNTIVKVFPTWLAPNLITFSGFLL
SPP00000015_1.0.3.genewise ------------------QYSAVDTNPLSVYVMQPIWNKIIKIVPLWIAPNLLTFSGFVM
:**********:***:*:**.*:*:.* *:****:*****::
SPP00000015_1.0 VVFNFLLMAYFDPDFYASAPGHKHVPDWVWIVVGILNFVAYTLDGVDGKQARRTNSSTPL
SPP00000015_1.0.3.genewise ILVNYFLISFYDWDYTASGTSPGRVPTWVWLFSAFTTFCAYALDSIDGKHARRTQSSSPL
::.*::*::::* *: **... :** ***:. .: .* **:**.:***:****:**:**
SPP00000015_1.0 GELFDHGLDSWSCVYFVVTVYSIFGR--GSTGVSVFVLYLLLWVVLFSFILSHWEKYNTG
SPP00000015_1.0.3.genewise GELFDHGLDSWATSIFALSFFSVCSRDNGKTGVSVYTMYMYLSIVLFNFMCSHWEKYNTG
***********: *.::.:*: .* *.*****:.:*: * :***.*: *********
SPP00000015_1.0 ILFLPWGYDISQVTISFVYIVTAVVGVEAWYEPFLFNFLYRDLFTAMIIGCALCVTLPMS
SPP00000015_1.0.3.genewise VLFLPWGYDLSQVVLITAYLLTGIVGVEVWQKPFLFGYYITDALVILLIGFSLLLSFPQT
:********:***.: .*::*.:****.* :****.: * :. ::** :* :::* :
SPP00000015_1.0 LLNFFRSYKNNTLKLNSVYEAMVPLFSPCLLFILSTAWILWSPSDILELHPRVFYFMVGT
SPP00000015_1.0.3.genewise LYNIHRAHLRKTLKNDSLYEGLLPLVSPLLLFMLLTVWVVLSPGNILAKQPRLFLWMVGV
* *:.*:: .:*** :*:**.::**.** ***:* *.*:: **.:** :**:* :***.
SPP00000015_1.0 AFANSTCQLIVCQMSSTRCPTLNWLLVPLFLVVLVVNLGVASYVESILLYTLTTAFTLAH
SPP00000015_1.0.3.genewise TFSNVICKVIICQMSSTQPELLHWFLFPLALVVYAAISGLLGQAEEAVLGAFTALVTAAH
:*:* *::*:******: *:*:*.** *** .. *: . .*. :* ::*: .* **
SPP00000015_1.0 IHYGVRVVKQLSSHFQIYPFSLRKPNSDULGMEEKNIGL
SPP00000015_1.0.3.genewise VHYGICVGRQLSEHFNIYIFSLKK---------------
:***: * :***.**:** ***:*
......................................................................................................................................................................................................................................................
RESULTADOS DEL Selenoprofiles
Output_id: SelI.10.unaligned
---------- -----------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (-) 3
-Program genewise
-Query name gi|146261167|ref|NP_001078947.1| selenoprotein I [Xenopus laevis]
-Query range 18-381 length:401 coverage: 0.91
-Profile range 19-390 length:411 coverage: 0.91 sec_position: [395]
-Average sequence identity with profile: 0.4859 (ignoring gaps: 0.5105)
-State kept
------- alignment -------
Query KYSAVDTNPLSLYVMHPFWNSIVR <---Intron---> FFPTWLAPNLITFSGFLLLVFTFFLMAFFDPGFYAS- <---Intron---> -APGQVH
/||||||||||/||| | || |// < 4399bp > | |/||||/|||||//// /||//|/| / || < 1907bp > /||/|
Target QYSAVDTNPLSVYVMQPIWNKIIK IVPLWIAPNLLTFSGFVMILVNYFLISFYDWDYTASG TSPGRV-
ctagggaacttgtgaccataaaaa agcttagcaccattgtgaatgattcatttgtgtagtg aacgcg-
aagctacactctattactgaatta ttctgtccattctcgttttttaatttctaagaaccc gcgcggt-
gcttgtattaagttggccgcactg agtagttacgccctatcgtatctcaatttcgccttg tcctatt-
Query VPNWVWILAGLLNFTSYTLD <---Intron---> GVDGKQARRTNSSTPLGELFDHGLDSWACIFFVVTVYSIFGR--GETGVSVLVLYLLLWVVLFS
| |||/ / | /| || < 4431bp > /||| |||| ||/|||||||||||||| | // /|/ | |/||||| /|/ | /|||/
Target -PTWVWLFSAFTTFCAYALD SIDGKHARRTQSSSPLGELFDHGLDSWATSIFALSFFSVCSRDNGKTGVSVYTMYMYLSIVLFN
-catgtctagtaattgtgtg taggacgcaactaaccggctgcgcgatgatatgcttttgttcgagaaggtgtaatattaagtta
-ccgtgttgctcctgcact actagaacggcacggctgattaagtaggcccttctcttctgcgaagacgtctactatatgtttta
-atggggctttccctttca tcatgactagtgctttgaagtctggccgtccttacttttctcgctggtattatagtgtactcgtc
Query FILSHWEKYNTGILFLPWGYDLSQV <---Intron---> TISCVYLVTAMVGVEAWYTPAFFNILYRDLFTSMIVG <---Intron---> CALCVT
|/ |||||||||/|||||||||||| < 5560bp > / ||/| /|||| | | | | ///| < 10020bp > /| //
Target FMCSHWEKYNTGVLFLPWGYDLSQV VLITAYLLTGIVGVEVWQKPFLFGYYITDALVILLIG FSLLLS
tattctgataaggctcctgtgtacg gtaagtccagagggggtcactctgttaaggtgatcag tatcct
ttgcagaaaacgttttcggaatgat tttccattcgttgtatgaactttgaatcactttttt gtgtttc
tgtacggatcaatttttgactacag gaaaatgccctttgatgggtcgtttctatgaacgta cctatta
Query LPMSLYNVFK <---Intron---> AYRDNTLKHGSLYEAMLPIISPVLLFILTTFWIFASPSNILEQHPRLFYFMVGTTFANIT <---Intron---
| /|||/ / < 1950bp > |/ |||/ |||| /||//||/|||/| | |/ || ||| / |||| /||| ||/|/ < 3251bp
Target FPQTLYNIHR AHLRKTLKNDSLYEGLLPLVSPLLLFMLLTVWVVLSPGNILAKQPRLFLWMVGVTFSNVI
tccactaaca gctaaacaagtttggccccgtcctctaccagtggttcgaatgaccattttagggattaga
tcactaatag catgactaaactaagttcttcctttttttctgtttccgattcaacgtttgttgtctcatt
tagaacccc aatagaaggtttgtaacattgatggccgttacggtataccaaaggaagtaggtgttcattt
Query > CQLIVCQMSNTRCQPLSWLLLPLTLAVGVSVSGVDSQYETLALVMVTVLVTVAHIHYGVNV <---Intron---> VNQLSKHFNILPFSLKK
> |//|/||||/|/ / | | | || | | //||/ | | | | ||| ||/|||/ | < 980bp > |||/|||| |||||
Target CKVIICQMSSTQPELLHWFLFPLALVVYAAISGLLGQAEEAVLGAFTALVTAAHVHYGICV GRQLSEHFNIYIFSLKK
tagaatcaaaaccgcccttctctgcggtggatgccgcgggggcggtagcgaggcgctgatg gaccagctaatattcaa
gatttgatggcacattagtttctctttacctcgttgacaacttgctccttcccataagtgt ggatgaatatattctaa
caccccggccagggggcgcgtcgaggccaccagggcgagacggtacaggcacacgcccctg ggggcaccctccttgga
------- positions -------
Exon 1 57466067 57466138
Exon 2 57461559 57461667
Exon 3 57459577 57459651
Exon 4 57454877 57455145
Exon 5 57449208 57449316
Exon 6 57439139 57439187
Exon 7 57437008 57437188
Exon 8 57433574 57433756
Exon 9 57432543 57432593
--------- SECIS ---------
>SelI.10.unaligned.esecis:loosest.1 chromosome:3 strand:- positions:57431997-57432100 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:None distance_from_cds:442
CCUCACAACU CAUUUCU UCCAUGCAGCCCC CUGAA GGGCUUUUCUUCA CC UUAUCUGAAUGCAUGA AGAGAAUGAGAUC AGAA AGUU GUGGGCG UGCCAUAUCU
.......... ....... .....(((((((( .(((( ((.(((((((((( .. .............))) )))))).)...)) )))) .... ).)))). ))).......
>SelI.10.unaligned.esecis:loosest.2 chromosome:3 strand:- positions:57431024-57431121 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:None distance_from_cds:1421
AUGAACACCG UGCUACA AACCAGAGCAAGC UUGAG GCUCGAAUCAGGC AG AAGCACAGGUG GCCUUAUUCGUG GGAU UUUGC UGAGGG AGGAAAGCUG
.......... .(((... ..((..((((((. .(((( ...(((((.(((( .. ..((....)). )))).))))).. )))) ))))) )..)). .....)))..
>SelI.10.unaligned.esecis:loosest.3 chromosome:3 strand:- positions:57430821-57430924 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:None distance_from_cds:1618
CAAGUGCCCA AAGUCUC UCUCAGAGCCAGG CUGAU GGCUGCUUAACG AA GGAUACUACUAACAGUCCUG UGCUGCUGUGUU UGAA GGG GAACUA CGAGCCUGAG
.......... ....... .(((((.((..(. .(((( (((.((...((( .. ((((..........)))))) )...))...))) )))) ((. ...)). )..)))))))
>SelI.10.unaligned.esecis:loosest.4 chromosome:3 strand:- positions:57429967-57430064 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:None distance_from_cds:2478
GGCUCUGCUC CACAGGC UGGAAUG CUGAG CUCCCCUCUG CC AGAAUCCUCCCAAAGU GGGGCUGGAC AGAG GGUCAGCCCC AGCCUGG UUGUAUCUGG
(((...))). ..((((( (((..(( .(((( .(((..(((. .. )))....(((((...) ))))..))). )))) ...))...)) )))))). ..........
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
CGTGTCCAAGAGTGA
R V Q E *
......................................................................................................................................................................................................................................................