SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Iodothyronine deiodinase 1 (DI1)
| DESCRIPCIÓN | Selenoprote&ina. 10(+):25904938...25908050 |
| SECISearch | Un elemento predicho en la cadena sense.10:subseq(25908050,10000):[1007,1098] |
| SELENOPROFILES | Encontrada. Predicción elemento SECIS (strand:+ positions:25909057-25909148) |
| COMENTARIOS | Elección: El alineamiento de las predicciones de Exonerate y Genewise obtuvieron el mismo SCORE pero por defecto reportamos el alineamiento de Genewise. Buena homología observada en el multiple-alignment, respaldada por las predicciones de SECISearch y Selenoprofiles. Con el pairwise-aligment se obtuvo un mayor SCORE para la DI 1, coincidente con la anotación de NCBI. |
1. ALINEAMIENTO MÚLTIPLE DE TODOS LOS HOMÓLOGOS DE SELENODB
2. BEST PAIRWISE ALIGNMENT
3. RESULTADOS DEL SECISearch
4. RESULTADOS DEL Selenoprofiles
ALINEAMIENTO MÚLTIPLE DE TODOS LOS HOMÓLOGOS DE SELENODB
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=68, Nseq=15, Len=331
SPP00000096_1.0 MGLPQLWLWLKRLVIFLQVALEVA---VGKVLMTLFPGRVKQSIL--------------A
SPP00000096_1.0.10.exonerate ---------LHKLLILLQVTLSVA---VGKTMMILFPDTTKRYIL--------------K
SPP00000096_1.0.10.genewise ---------LHKLLILLQVTLSVA---VGKTMMILFPDTTKRYIL--------------K
SPP00000001_1.0 MGLPQPGLWLKRLWVLLEVAVHVV---VGKVLLILFPDRVKRNIL--------------A
SPP00000001_1.0.10.exonerate ---------LHKLLILLQVTLSVA---VGKTMMILFPDTTKRYIL--------------K
SPP00000001_1.0.10.genewise ---------LHKLLILLQVTLSVA---VGKTMMILFPDTTKRYIL--------------K
SPP00000002_1.0 ---------MGILSVDLLITLQILPVFFSNCLF------------LALYDSVILLKHVVL
SPP00000002_1.0.10.exonerate ---------LLSHLLLQLPAAQST---SGS-----FDNILTKEVI--------------R
SPP00000002_1.0.10.genewise ------------------------------------------------------------
SPP00000097_1.0 ---------MGLLSVDLLITLQILPVFFSNCLF------------LALYDSVILLKHVAL
SPP00000097_1.0.10.exonerate ---------PRS------------------------------------------------
SPP00000097_1.0.10.genewise ------------------------------------------------------------
SPP00000003_1.0 ---------MLRSLLLHSLRLCAQ---T-ASCLVLFPRFLGTAFMLWLLDFLCIRKH--F
SPP00000003_1.0.10.exonerate ------------------------------------------------------------
SPP00000003_1.0.10.genewise ------------------------------------------------------------
SPP00000096_1.0 MGQKTGMARNPRFA------------------PDNWVPTFFSIQYFWFVLKVRWQRL---
SPP00000096_1.0.10.exonerate LGEKSRMNQNPKFS------------------YENWGPTFFSFQYLLFVLKVKWRRL---
SPP00000096_1.0.10.genewise LGEKSRMNQNPKFS------------------YENWGPTFFSFQYLLFVLKVKWRRL---
SPP00000001_1.0 MGEKTGMTRNPHFS------------------HDNWIPTFFSTQYFWFVLKVRWQRL---
SPP00000001_1.0.10.exonerate LGEKSRMNQNPKFS------------------YENWGPTFFSFQYLLFVLKVKWRRL---
SPP00000001_1.0.10.genewise LGEKSRMNQNPKFS------------------YENWGPTFFSFQYLLFVLKVKWRRL---
SPP00000002_1.0 LLSRSKSTR---------GEWRRM-------------LTSE-------GLRCVWKSFLLD
SPP00000002_1.0.10.exonerate NTEVSNRVQR----------------------------------FHTAVLNEERQRS---
SPP00000002_1.0.10.genewise ------------------------------------------------------------
SPP00000097_1.0 LLSRSKSTR---------GEWRRM-------------LTSE-------GLRCVWNSFLLD
SPP00000097_1.0.10.exonerate ----------------------------------------------------SLDRV---
SPP00000097_1.0.10.genewise ------------------------------------------------------------
SPP00000003_1.0 LGRRRRGQPEPEVELNSEGEEVPPDDPPICVSDDNRLCTLASLKAVWHGQKLD---F---
SPP00000003_1.0.10.exonerate ------------------------------------------------------------
SPP00000003_1.0.10.genewise ------------------------------------------------------------
SPP00000096_1.0 -EDRAEFGGLAPNCTVV-------CLS------------------G-QKCNIWDFIQGSR
SPP00000096_1.0.10.exonerate -EDKAYEGHPAPNTPVV-------ALN------------------G-EIRQLSSFMRDNR
SPP00000096_1.0.10.genewise -EDKAYEGHPAPNTPVV-------ALN------------------G-EIRQLSSFMRDNR
SPP00000001_1.0 -EDTTELGGLAPNCPVV-------RLS------------------G-QRCNIWEFMQGNR
SPP00000001_1.0.10.exonerate -EDKAYEGHPAPNTPVV-------ALN------------------G-EIRQLSSFMRDNR
SPP00000001_1.0.10.genewise -EDKAYEGHPAPNTPVV-------ALN------------------G-EIRQLSSFMRDNR
SPP00000002_1.0 AYKQVKLGEDAPNSSVV-------HVSSTEGGDNSGNGTQEKIAEG-ATCHLLDFASPER
SPP00000002_1.0.10.exonerate -SETTYENTQ--FCLTKNDKRKDSLCLG-------------------KTCSTL-EWSDNR
SPP00000002_1.0.10.genewise ------------------------------------------------------FLPDNR
SPP00000097_1.0 AYKQVKLGEDAPNSSVV-------HVSNPESGNN---YASEKTADG-AECHLLDFASAER
SPP00000097_1.0.10.exonerate -SEQSF-GKL--YCCKI-------EIDN-----------------S-NCCQMV-NKTDNR
SPP00000097_1.0.10.genewise ------------------------------------------------------------
SPP00000003_1.0 -FKQAHEGGPAPNSEVV-------LPD------------------GFQSQHILDYAQGNR
SPP00000003_1.0.10.exonerate ---KAYEGHPAPNTPVV-------ALN------------------G-EIRQLSSFMRDNR
SPP00000003_1.0.10.genewise ---KAYEGHPAPNTPVV-------ALN------------------G-EIRQLSSFMRDNR
SPP00000096_1.0 PLVLNFGSCTUPSFLLKFDQFKRLV--FASTADFLIIYIEEAHATDGWAFKNN----VDI
SPP00000096_1.0.10.exonerate PLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
SPP00000096_1.0.10.genewise PLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
SPP00000001_1.0 PLVLNFGSCTUPSFMFKFDQFKRLIEDFSSIADFLVIYIEEAHASDGWAFKNN----MDI
SPP00000001_1.0.10.exonerate PLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
SPP00000001_1.0.10.genewise PLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
SPP00000002_1.0 PLVVNFGSATUPPFTSQLPAFRKLVEEFSSVADFLLVYIDEAHPSDGWAIPGDSSLSFEV
SPP00000002_1.0.10.exonerate PLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
SPP00000002_1.0.10.genewise PLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
SPP00000097_1.0 PLVVNFGSATUP-FTRQLPAFRQLVEEFSSVADFLLVYIDEAHPSDGWAVPGDSSLSFEV
SPP00000097_1.0.10.exonerate PLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
SPP00000097_1.0.10.genewise -------------FMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
SPP00000003_1.0 PLVLNFGSCTUPPFMARMSAFQRLVTKYQRDVDFLIIYIEEAHPSDGWVTTDSP---YII
SPP00000003_1.0.10.exonerate PLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
SPP00000003_1.0.10.genewise PLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNN----VVI
* :: *.:*: : .***::**:***. ***. .. :
SPP00000096_1.0 RQHRSLQERVRAARMLLAR---SPQCPVVVDTMQNQSSQLYAALPERLYVIQEGRICYKG
SPP00000096_1.0.10.exonerate KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKG
SPP00000096_1.0.10.genewise KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKG
SPP00000001_1.0 RNHQNLQDRLQAAHLLLAR---SPQCPVVVDTMQNQSSQLYAALPERLYIIQEGRILYKG
SPP00000001_1.0.10.exonerate KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKG
SPP00000001_1.0.10.genewise KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKG
SPP00000002_1.0 KKHQNQEDRCAAAQQLLERFSLPPQCRVVADRMDNNANIAYGVAFERVCIVQRQKIAYLG
SPP00000002_1.0.10.exonerate KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKG
SPP00000002_1.0.10.genewise KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKG
SPP00000097_1.0 KKHRNQEDRCAAAHQLLERFSLPPQCQVVADRMDNNANVAYGVAFERVCIVQRRKIAYLG
SPP00000097_1.0.10.exonerate KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKG
SPP00000097_1.0.10.genewise KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKG
SPP00000003_1.0 PQHRSLEDRVSAARVLQQG---APGCALVLDTMANSSSSAYGAYFERLYVIQSGTIMYQG
SPP00000003_1.0.10.exonerate KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKG
SPP00000003_1.0.10.genewise KNHRSLEDRKTAAQFLQQK---NPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIY--
:*:. ::* **: * * * :* * * * :. *.. **: ::* : *
SPP00000096_1.0 KAGPWNYNPEEVRAVLEKLCTPPR--HVPQL
SPP00000096_1.0.10.exonerate GVGPWNYHPQEIRTVLEK------------L
SPP00000096_1.0.10.genewise GVGPWNYHPQEIRTVLEK------------L
SPP00000001_1.0 KSGPWNYNPEEVRAVLEKL----------HS
SPP00000001_1.0.10.exonerate GVGPWNYHPQEIRTVLEK------------L
SPP00000001_1.0.10.genewise GVGPWNYHPQEIRTVLEK------------L
SPP00000002_1.0 GKGPFSYNLQEVRHWLEKNFS--------KR
SPP00000002_1.0.10.exonerate GVGPWNYHPQEIRTVLE-------------K
SPP00000002_1.0.10.genewise GVGPWNYHPQEIRTVLE-------------K
SPP00000097_1.0 GKGPFSYNLQEVRSWLEKNFSKR-----ILD
SPP00000097_1.0.10.exonerate GVGPWNYHPQEIRTVLE-------------K
SPP00000097_1.0.10.genewise GVGPWNYHPQEIRTVLE-------------K
SPP00000003_1.0 GRGPDGYQVSELRTWLERYDEQLHGARPRRV
SPP00000003_1.0.10.exonerate GVGPWNYHPQEIRTVLE-------------K
SPP00000003_1.0.10.genewise ------------------------------K
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=99, Nseq=2, Len=249
SPP00000001_1.0 MGLPQPGLWLKRLWVLLEVAVHVVVGKVLLILFPDRVKRNILAMGEKTGMTRNPHFSHDN
SPP00000001_1.0.10.genewise ---------LHKLLILLQVTLSVAVGKTMMILFPDTTKRYILKLGEKSRMNQNPKFSYEN
*::* :**:*:: *.***.::***** .** ** :***: *.:**:**::*
SPP00000001_1.0 WIPTFFSTQYFWFVLKVRWQRLEDTTELGGLAPNCPVVRLSGQRCNIWEFMQGNRPLVLN
SPP00000001_1.0.10.genewise WGPTFFSFQYLLFVLKVKWRRLEDKAYEGHPAPNTPVVALNGEIRQLSSFMRDNRPLILN
* ***** **: *****:*:****.: * *** *** *.*: :: .**:.****:**
SPP00000001_1.0 FGSCTUPSFMFKFDQFKRLIEDFSSIADFLVIYIEEAHASDGWAFKNNMDIRNHQNLQDR
SPP00000001_1.0.10.genewise FGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVDGWAFKNNVVIKNHRSLEDR
***** ****:***:*::*::****:****:******** ********: *:**:.*:**
SPP00000001_1.0 LQAAHLLLARSPQCPVVVDTMQNQSSQLYAALPERLYIIQEGRILYKGKSGPWNYNPEEV
SPP00000001_1.0.10.genewise KTAAQFLQQKNPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYKGGVGPWNYHPQEI
**::* :.* ****:***:* **. **********:* *.::*** *****:*:*:
SPP00000001_1.0 RAVLEKLHS
SPP00000001_1.0.10.genewise RTVLEK--L
*:****
......................................................................................................................................................................................................................................................
RESULTADOS DEL SECISearch
>10:subseq(25908050,10000):[1007,1098] [1007 - 1098] - Free Energy: -19.27 CUCUUGACAUUUGUUUCUAUAAUAUUUGUUAUGACAGUCACAGCAAAAAGCACAGACAGCUGUGACCUGAUUUUAUAAAAUAUUUUUAGAAA
_[1007,1098].png)
......................................................................................................................................................................................................................................................
RESULTADOS DEL Selenoprofiles
Output_id: DI.3.selenocysteine
---------- -------------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (+) 10
-Program genewise
-Query name gi|148277086|ref|NP_001091083.1| deiodinase, iodothyronine, type I [Gallus gallus]
-Query range 1-246 length:246 coverage: 1.0
-Profile range 1-486 length:486 coverage: 1.0 sec_position: [257]
-Average sequence identity with profile: 0.3238 (ignoring gaps: 0.4068)
-State kept
------- alignment -------
Query MLSIRVLLHKLLILLQVTLSVVVGKTMMILFPDTTKRYILKLGEKSRMNQNPKFSYENWGPTFFSFQYLLFVLKVKWRRLEDEAHEGRPAPNTPVVALNG
| ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||/|/|| ||||||||||||
Target MFSIRVLLHKLLILLQVTLSVAVGKTMMILFPDTTKRYILKLGEKSRMNQNPKFSYENWGPTFFSFQYLLFVLKVKWRRLEDKAYEGHPAPNTPVVALNG
ataaagcccaccactcgactggggaaaaactcgaaaatacacggaaaaacacatatgatgcattatcttctgcagataacggagtggccgcaacgggcag
ttgtgtttaatttttatctctctgactttttcaccagattatgaaggtaaacatgaaaggccttgtaatttttatagggtaaacaagacccaccttctag
gcccggaacacgttggttgtttttacggagccccaaaccaggaagcagtgcggcccacgtgttcccgtgctggagggggggcaccgacttccagggtatg
Query EMQHLFSFMRD <---Intron---> NRPLILNFGSCTUPSFMLKFDEFNKLVKDFSSIADFLIIYIEEAHAVD <---Intron---> GWAFRNNVV
|// | ||||| < 1578bp > ||||||||||||||||||||||||||||||||/||||||||||||||| < 941bp > ||||/||||
Target EIRQLSSFMRD NRPLILNFGSCTUPSFMLKFDEFNKLVKDFSSVADFLIIYIEEAHAVD GWAFKNNVV
gaccctatacg acctacatgatatcttatatggtaacgagtatgggtcaatagggcggg gtgtaaagg
atgatcgttg aagctttatgggcgcctttataataattaatgctcattttataacact aggctaaatt
gcggcgtcga tcataccttacccatgtgaattgccatcatcctaatctccccaatcaa tagccacctt
*
Query IKNHRSLEDRKTAAQFLQQKNPLCPVVLDTMENLSSSKYAALPERLYILQAGNVIYK <---Intron---> GGVGPWNYHPQEIRAVLEKLK
|||||||||||||||||||||||||||||||||||||/||||||||||||||||||| < 481bp > |||||||||||||| ||||||
Target IKNHRSLEDRKTAAQFLQQKNPLCPVVLDTMENLSSSQYAALPERLYILQAGNVIYK GGVGPWNYHPQEIRTVLEKLK
aaacaacggcaaggctcccaacttcggtgaagacaatctggccgactaccggagata ggggctatcccgacagcgaca
taaaggtaagacccattaaaactgctttactaatggcaacctcagtattacgattaa ggtgcgaaacaatgcttaata
tatcactgtaataaattgggtcatagtacagacgctaacaagaaagtataagttccg aaggtgtcccgaactcgaaga
------- positions -------
Exon 1 25904848 25905178
Exon 2 25906757 25906900
Exon 3 25907842 25908041
Exon 4 25908523 25908585
--------- SECIS ---------
>DI.3.selenocysteine.esecis:str.1 chromosome:10 strand:+ positions:25909057-25909148 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:837 distance_from_cds:471
CUCUUGACAU UUGUUUCU AUAAUAUUUGUU AUGAC AGUCACAGCAA AA AGCACAGAC AGCUGUGACC UGAU UUU AUAAAAUA UUUUUAGAAA
.....(((.. ..)))((( (.(((((((... .(((( .((((((((.. .. ......... .)))))))). )))) ... ...))))) ))..))))..
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
TAG
*
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