SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Methioninesulfoxide reductase A (Msr A)
| DESCRIPCIÓN | Homólogo con cisteína. 2(+):112284726...112470320. |
| SECISearch | Sin resultados. |
| SELENOPROFILES | Encontrada. Elección: Genewise. Elemento SECIS predicho (strand:+ positions:112472263-112472362) |
| COMENTARIOS | Elección Genewise. El alineamiento de las predicciones de Exonerate y Genewise obtuvieron el mismo score pero por defecto reportamos el alineamiento de Genewise. Aunque SECISearch no ha predicho elemento SECIS, Selenoprofiles respalda la presencia de la Msr A en el cromosoma 2 encontrando esta proteína y el elemento SECIS. |
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=66, Nseq=18, Len=303
SPP00000012_1.0 MLSATRRACQLLLLHSLFPVPRMGNSASNIVSP--QE--ALPGRKEQTPVAAK-HHVNGN
SPP00000012_1.0.2.exonerate E--------------------------------------LLQGAKPQFPFLNK-HHVNGN
SPP00000012_1.0.2.genewise ----------------------------------------------------K-HHVNGN
SPP00000078_1.0 MLSASRRALQL--LSSANPVRRMGDSASKVISA--EE--ALPGRTEPIPVTAK-HHVSGN
SPP00000078_1.0.2.exonerate -----------------------------------------------VPVTDK-HHVNGN
SPP00000078_1.0.2.genewise ----------------------------------------------------K-HHVNGN
SPP00000084_1.0 MAY---------------------------------------------------------
SPP00000084_1.0.2.exonerate ------------------------------------------------------------
SPP00000084_1.0.2.genewise ------------------------------------------------------------
SPP00000039_1.0 MSLTITSSVT---------------------HPELKDLSTVRNEQKELNISPV-HDVN--
SPP00000039_1.0.2.exonerate -----------------------------------------------MNYVEAVTHSSQK
SPP00000039_1.0.2.genewise ------------------------------------------------------------
SPP00000049_1.0 MVATEHA------------------------HDQA-------GRLENIPQQPL-HQID--
SPP00000049_1.0.2.exonerate ------------------------------------------------------------
SPP00000049_1.0.2.genewise ------------------------------------------------------------
SPP00000050_1.0 MVATEHA------------------------HDQA-------GRLENIPQQPL-HQID--
SPP00000050_1.0.2.exonerate ------------------------------------------------------------
SPP00000050_1.0.2.genewise ------------------------------------------------------------
SPP00000012_1.0 R-----------TVEPFPEGT---QMAVFGMGCFWGAERKFWVLKGVYSTQVGFAGGYTS
SPP00000012_1.0.2.exonerate R-----------MVEPFPEGT---QMAIFGMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000012_1.0.2.genewise R-----------MVEPFPEGT---QMAIFGMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000078_1.0 R-----------TVEPFPEGT---QMAVFGMGCFWGAERKFWVLKGVYSTQVGFAGGHTR
SPP00000078_1.0.2.exonerate R-----------MVEPFPEGT---QMAIFGMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000078_1.0.2.genewise R-----------MVEPFPEGT---QMAIFGMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000084_1.0 --------------------L---ERAYFGLQCFWG-ESAWAKLKGVVVTRVGYAGGKQP
SPP00000084_1.0.2.exonerate ---------------------------YSGMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000084_1.0.2.genewise ---------------------------YSGMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000039_1.0 ------------------VTK---ATATFGMGCFWGAESLYGATRGVLRTTVGYAGGSSD
SPP00000039_1.0.2.exonerate DVTRVKCEAKETGIFPCVEQTEKQAAQGGGMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000039_1.0.2.genewise -----------------------------GMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000049_1.0 ------------------TPF---EKATFGMGCFWGCDSLFGATKGVLRTRVGYAGGSTE
SPP00000049_1.0.2.exonerate -----------------------------GMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000049_1.0.2.genewise -----------------------------GMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000050_1.0 ------------------TPF---EKATFGMGCFWGCDSLFGATKGVLRTRVGYAGGSTE
SPP00000050_1.0.2.exonerate -----------------------------GMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
SPP00000050_1.0.2.genewise -----------------------------GMGCFWGAERKFWRQKGVYSTHVGYAGGYTP
*: **** : : :** * **:***
SPP00000012_1.0 NPTYKEVCSEKTGHAEVVRVVYQPEHMSFEELLKVFWENHDPTQGMRQGNDHGTQYRSAI
SPP00000012_1.0.2.exonerate NPTYKEVCSGRTGHTEAVRVVYQPENISFEKLLKVFWENHDPTQGMRQGNDFGTQYRSAI
SPP00000012_1.0.2.genewise NPTYKEVCSGRTGHTEAVRVVYQPENISFEKLLKVFWENHDPTQGMRQGNDFGTQYRSAI
SPP00000078_1.0 NPTYKEVCSEKTGHAEVVRVVYRPEHISFEELLKVFWENHDPTQGMRQGNDFGTQYRSAV
SPP00000078_1.0.2.exonerate NPTYKEVCSGRTGHTEAVRVVYQPENISFEKLLKVFWENHDPTQGMRQGNDFGTQYRSAI
SPP00000078_1.0.2.genewise NPTYKEVCSGRTGHTEAVRVVYQPENISFEKLLKVFWENHDPTQGMRQGNDFGTQYRSAI
SPP00000084_1.0 NPTYKNIKD----HTEITEITFDPKVIEYSKLTNFFWKHHNPAE--R----RKKQYQSAI
SPP00000084_1.0.2.exonerate NPTYKEVCSE---------IDLQPVTIDNS------------------------------
SPP00000084_1.0.2.genewise NPTYKE------------------------------------------------------
SPP00000039_1.0 LPTYRKMGD----HTEVLEIDYDPTVISFKELLDLFWNNHEYGLTTP----IKRQYASLI
SPP00000039_1.0.2.exonerate NPTYKEVCSE---------IDLQPVTIDNS------------------------------
SPP00000039_1.0.2.genewise NPTYKE------------------------------------------------------
SPP00000049_1.0 SPAYKKMGD----HTEVIEIDYDPQTISYNDLLDLFWNNHEYGLTTR----MKRQYMSLI
SPP00000049_1.0.2.exonerate NPTYKEVCSG----LLVIKIDLQPVT----------------------------------
SPP00000049_1.0.2.genewise NPTYKEV-----------------------------------------------------
SPP00000050_1.0 SPAYKKMGD----HTEVIEIDYDPQTISYIDLLDLFWNNHEYGLTTR----MKRQYMSLI
SPP00000050_1.0.2.exonerate NPTYKEVCSE---------IDLQPVTIDNS------------------------------
SPP00000050_1.0.2.genewise NPTYKEV-----------------------------------------------------
*:*::
SPP00000012_1.0 YPTSAKQMEAALSSKENYQKVLSEHGFGPITTDIREGQTFYYAEDYHQQYL---------
SPP00000012_1.0.2.exonerate YTFSQEQMEAALKSKEEYQKVLTESGFGAITTEIREAPEFYYAEDYHQQYL---------
SPP00000012_1.0.2.genewise YTFSQEQMEAALKSKEEYQKVLTESGFGAITTEIREAPEFYYAEDYHQQYL---------
SPP00000078_1.0 YPTSAVQMEAALRSKEEYQKVLSKHNFGPITTDIREGQVFYYAEDYHQQYL---------
SPP00000078_1.0.2.exonerate YTFSQEQMEAALKSKEEYQKVLTESGFGAITTEIREAPEFYYAEDYHQQYL---------
SPP00000078_1.0.2.genewise YTFSQEQMEAALKSKEEYQKVLTESGFGAITTEIREAPEFYYAEDYHQQYL---------
SPP00000084_1.0 LYVNDDQKKVAEETLKV--A---KDKHGDIETYIEPLDKFYQAEDYHQKYWFRQKKILFD
SPP00000084_1.0.2.exonerate ------------------------------------------------------------
SPP00000084_1.0.2.genewise ------------------------------------------------------------
SPP00000039_1.0 LYHDEEQKQVAHASKLEEQE---RRAPEIITTEIASKENFYPAEAYHQKYRLQGHKDLAS
SPP00000039_1.0.2.exonerate ------------------------------------------------------------
SPP00000039_1.0.2.genewise ------------------------------------------------------------
SPP00000049_1.0 LYHNEQQRQIAEASRAEEQV---KRAPEQIITEIAPAGPFYPAENYHQKYRLQGHTDLAK
SPP00000049_1.0.2.exonerate ------------------------------------------------------------
SPP00000049_1.0.2.genewise ------------------------------------------------------------
SPP00000050_1.0 LYHNEQQRQIAEASRAEEQV---KRAPEQIITEIAPAGPFYPAENYHQKYRLQGHTDLAK
SPP00000050_1.0.2.exonerate ------------------------------------------------------------
SPP00000050_1.0.2.genewise ------------------------------------------------------------
SPP00000012_1.0 --------------SKNPNGYC-GLGGT-------------------------GVSCPVG
SPP00000012_1.0.2.exonerate --------------SKNPNGYC-GLGGT-------------------------GISCPIG
SPP00000012_1.0.2.genewise --------------SKNPNGYC-GLGGT-------------------------GISCPIG
SPP00000078_1.0 --------------SKNPDGYC-GLGGT-------------------------GVSCPMA
SPP00000078_1.0.2.exonerate --------------SKNPNGYC-GLGGT-------------------------GISCPIG
SPP00000078_1.0.2.genewise --------------SKNPNGYC-GLGGT-------------------------GISCPIG
SPP00000084_1.0 ELSLLDTQVAEGELATKLNAYCAGFQDFHDLERLAKEYGLKDSFVNKVKDYALSGGDPRN
SPP00000084_1.0.2.exonerate ------------------------------------------------------------
SPP00000084_1.0.2.genewise ------------------------------------------------------------
SPP00000039_1.0 SLNLSPKLLQTSYVATKLNGYLAGVGGIEQFKAEAETMGLTPTQRQYCYYHVE-QNEGQG
SPP00000039_1.0.2.exonerate ------------------------------------------------------------
SPP00000039_1.0.2.genewise ------------------------------------------------------------
SPP00000049_1.0 GIGLTPDLLHTSHVAARLNGYLIGVSGLKQFEDEADLLGLSKDQVQYVREYVI-QNEGGG
SPP00000049_1.0.2.exonerate ------------------------------------------------------------
SPP00000049_1.0.2.genewise ------------------------------------------------------------
SPP00000050_1.0 GIGLTPDLLHTSHVAARLNGYLIGVSGLKQFEDEADLLGLSKDQVQYVREYVI-QNEGGG
SPP00000050_1.0.2.exonerate ----------------------------------------------------------II
SPP00000050_1.0.2.genewise ------------------------------------------------------------
SPP00000012_1.0 IKK
SPP00000012_1.0.2.exonerate IRK
SPP00000012_1.0.2.genewise IRK
SPP00000078_1.0 IKK
SPP00000078_1.0.2.exonerate IRK
SPP00000078_1.0.2.genewise IRK
SPP00000084_1.0 CHA
SPP00000084_1.0.2.exonerate -II
SPP00000084_1.0.2.genewise --V
SPP00000039_1.0 LYC
SPP00000039_1.0.2.exonerate IIS
SPP00000039_1.0.2.genewise --V
SPP00000049_1.0 IFC
SPP00000049_1.0.2.exonerate --I
SPP00000049_1.0.2.genewise ---
SPP00000050_1.0 IFC
SPP00000050_1.0.2.exonerate SLL
SPP00000050_1.0.2.genewise ---
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=100, Nseq=2, Len=233
SPP00000078_1.0 MLSASRRALQLLSSANPVRRMGDSASKVISAEEALPGRTEPIPVTAKHHVSGNRTVEPFP
SPP00000078_1.0.2.genewise ----------------------------------------------KHHVNGNRMVEPFP
****.*** *****
SPP00000078_1.0 EGTQMAVFGMGCFWGAERKFWVLKGVYSTQVGFAGGHTRNPTYKEVCSEKTGHAEVVRVV
SPP00000078_1.0.2.genewise EGTQMAIFGMGCFWGAERKFWRQKGVYSTHVGYAGGYTPNPTYKEVCSGRTGHTEAVRVV
******:************** ******:**:***:* ********* :***:*.****
SPP00000078_1.0 YRPEHISFEELLKVFWENHDPTQGMRQGNDFGTQYRSAVYPTSAVQMEAALRSKEEYQKV
SPP00000078_1.0.2.genewise YQPENISFEKLLKVFWENHDPTQGMRQGNDFGTQYRSAIYTFSQEQMEAALKSKEEYQKV
*:**:****:****************************:*. * ******:********
SPP00000078_1.0 LSKHNFGPITTDIREGQVFYYAEDYHQQYLSKNPDGYCGLGGTGVSCPMAIKK
SPP00000078_1.0.2.genewise LTESGFGAITTEIREAPEFYYAEDYHQQYLSKNPNGYCGLGGTGISCPIGIRK
*:: .**.***:***. ****************:*********:***:.*:*
......................................................................................................................................................................................................................................................
RESULTADOS DEL Selenoprofiles
Output_id: MsrA.1.cysteine
---------- ---------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (+) 2
-Program genewise
-Query name gi|224048943|ref|XP_002188066.1| PREDICTED: similar to methionine sulfoxide reductase A isoform 2
[Taeniopygia guttata]
-Query range 26-213 length:213 coverage: 0.88
-Profile range 159-398 length:398 coverage: 0.6 sec_position: [188]
-Average sequence identity with profile: 0.632 (ignoring gaps: 0.6473)
-State kept
------- alignment -------
Query DKHHVNGNRMVEPFPEGTQMALFG <---Intron---> MGUFWGAERKFWRQKGVYSTQVGYAGGHTPNPTYKEVCSG <---Intron---> RTGH
|||||||||||||||||||||/|| < 26777bp > || ||||||||||||||||| ||||||/|||||||||||| < 43839bp > ||||
Target DKHHVNGNRMVEPFPEGTQMAIFG MGCFWGAERKFWRQKGVYSTHVGYAGGYTPNPTYKEVCSG RTGH
gaccgagaaaggctcggacagatg agtttgggaattacaggttacggtgggtacacataggttg aagc
aaaatagagttactcagcatctt gtggtggcagatggaagtaccatgacggaccaccaaatgc ggcga
tattctacagaatcagagggtat tgcccgatgggtgagaactctcgttaatttattccaacta tatcc
*
Query TEAVRVVFEPQNISFEQLLKVFWENHDPTQG <---Intron---> MRQGNDVGTQYRSAIYTFSQEQMEAALRSKEEYQK <---Intron---> VL
|||||||//|/|||||/|||||||||||||| < 19478bp > |||||| ||||||||||||||||||||/||||||| < 94940bp > ||
Target TEAVRVVYQPENISFEKLLKVFWENHDPTQG MRQGNDFGTQYRSAIYTFSQEQMEAALKSKEEYQK VL
agggcggtccgaaatgaccagttgacgcacg accgagtgactctgatattcgcagggtataggtca gt
cactgttaacaatgtaattattgaaaacca gtgagaatgcaagcctactcaaatacctacaaaaaa tt
agtaagatgaaccctgagcgccggttcgaa aggattctctgttacccctcaaggatcgatgaatag ag
Query TEEGFGPITTEIREAPEFYYAEEYHQQYLSKNPGGYCGLGGTGVSCPMGVRK
|| ||| |||||||||||||||/|||||||||| |||||||||/|||/|/||
Target TESGFGAITTEIREAPEFYYAEDYHQQYLSKNPNGYCGLGGTGISCPIGIRK
agagtggaaagacggcgtttgggtccctcaaacagttgcggagattcagaaa
caggtgctccatgaccataacaaaaaaatgaacagaggtggcgtcgctgtga
aactttccaaacggtggttctatctggcccgcctactccgaagtccccgcga
------- positions -------
Exon 1 112284723 112284792
Exon 2 112311570 112311689
Exon 3 112355529 112355633
Exon 4 112375112 112375218
Exon 5 112470159 112470320
--------- SECIS ---------
>MsrA.1.cysteine.esecis:loosest.1 chromosome:2 strand:+ positions:112472263-112472362 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:None distance_from_cds:1942
AGGAUUGUCU GGAGAAG AGGAGGCUCAGGA GUGAC CUUAUAGCUCU CC ACAGCUACUUGAAA GGAAGCUGUGG UGAG GUGAGG UUUGGCC UCUUCUCCCA
.(((...))) ((((((( (((...((((... .(((( ((......... .. ((((((.((..... )).)))))))) )))) .)))). .....)) ))))))))..
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
TAG
*
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