SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Selenoprotein S (Sel S)
| DESCRIPCIÓN | Selenoproteína (U) 12(-):17666982...17666902. |
| SECISearch | Un elemento predicho en la cadena antisense. 12:subseq(17656982,10000):[5995,5897] |
| SELENOPROFILES | Encontrada. Predicción elemento SECIS (strand:- positions:17662878-1766297) |
| COMENTARIOS | Elección: El alineamiento de las predicciones de Exonerate y Genewise obtuvieron el mismo score pero por defecto reportamos el alineamiento de genewise. La homología vista en el multiple-alignment sumada a los resultados de SECISearch y Selenoprofiles respaldan la presencia de la Sel S en el cromosoma 12. |
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=99, Nseq=6, Len=190
SPP00000024_1.0 MERQEESLSARPALETEGLRFLHTTVGSLLATYGWYIVFSCILLYVVFQKLSARLRALRQ
SPP00000024_1.0.12.exonerate -----------------------------------------MVFYVIIESLRARWRWQRR
SPP00000024_1.0.12.genewise ------------------------------------------------------------
SPP00000115_1.0 MDRDEEPLSARPALETESLRFLHVTVGSLLASYGWYILFSCILLYIVIQRLSLRLRALRQ
SPP00000115_1.0.12.exonerate -----------------------------------------MVFYVIIESLRARWRWQRR
SPP00000115_1.0.12.genewise ------------------------------------------------------------
SPP00000024_1.0 RQLDRAAAAVEPDVVVKRQEALAAARLKMQEELNAQVEKHKEKLKQLEEEKRRQKIEMWD
SPP00000024_1.0.12.exonerate RRRSMRSSAPEPDMVVRRQEALLASRLRMQEELNAQAERYKEKQRQLEEQKRRQKIEMWE
SPP00000024_1.0.12.genewise --------SLEPDMVVRRQEALLASRLRMQEELNAQAERYKEKQRQLEEQKRRQKIEMWE
SPP00000115_1.0 RQLDQAETVLEPDVVVKRQEALAAARLRMQEDLNAQVEKHKEKLRQLEEEKRRQKIEMWD
SPP00000115_1.0.12.exonerate RRRSMRSSAPEPDMVVRRQEALLASRLRMQEELNAQAERYKEKQRQLEEQKRRQKIEMWE
SPP00000115_1.0.12.genewise ---------LEPDMVVRRQEALLASRLRMQEELNAQAERYKEKQRQLEEQKRRQKIEMWE
***:**:***** *:**:***:****.*::*** :****:*********:
SPP00000024_1.0 SMQEGKSYKGNAKKPQEEDSPGPSTSSV-LKRKSDRKPLRGGGYNPLSGEGGGACSWRPG
SPP00000024_1.0.12.exonerate SMQEGKSYKGNLKLSQQEAESGASTSSAVPKSKPNKKPLRGGGYNPLSGEGGGTCSWRPG
SPP00000024_1.0.12.genewise SMQEGKSYKGNLKLSQQEAESGASTSSAVPKSKPNKKPLRGGGYNPLSGEGGGTCSWRPG
SPP00000115_1.0 SMQEGRSYKRNSGRPQEEDGPGPSTSSVIPKGKSDKKPLRGGGYNPLTGEGGGTCSWRPG
SPP00000115_1.0.12.exonerate SMQEGKSYKGNLKLSQQEAESGASTSSAVPKSKPNKKPLRGGGYNPLSGEGGGTCSWRPG
SPP00000115_1.0.12.genewise SMQEGKSYKGNLKLSQQEAESGASTSSAVPKSKPNKKPLRGGGYNPLSGEGGGTCSWRPG
*****:*** * .*:* .*.****. * *.::***********:*****:******
SPP00000024_1.0 RRGPSSGGUG
SPP00000024_1.0.12.exonerate RRGPSAGGUG
SPP00000024_1.0.12.genewise RRGPSAG-UG
SPP00000115_1.0 RRGPSSGGUN
SPP00000115_1.0.12.exonerate RRGPSAG-UG
SPP00000115_1.0.12.genewise RRGPSAG-UG
*****:* .
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=99, Nseq=2, Len=190
SPP00000115_1.0 MDRDEEPLSARPALETESLRFLHVTVGSLLASYGWYILFSCILLYIVIQRLSLRLRALRQ
SPP00000115_1.0.12.genewise ------------------------------------------------------------
SPP00000115_1.0 RQLDQAETVLEPDVVVKRQEALAAARLRMQEDLNAQVEKHKEKLRQLEEEKRRQKIEMWD
SPP00000115_1.0.12.genewise ---------LEPDMVVRRQEALLASRLRMQEELNAQAERYKEKQRQLEEQKRRQKIEMWE
****:**:***** *:******:****.*::*** *****:*********:
SPP00000115_1.0 SMQEGRSYKRNSGRPQEEDGPGPSTSSVIPKGKSDKKPLRGGGYNPLTGEGGGTCSWRPG
SPP00000115_1.0.12.genewise SMQEGKSYKGNLKLSQQEAESGASTSSAVPKSKPNKKPLRGGGYNPLSGEGGGTCSWRPG
*****:*** * .*:* .*.****.:**.*.:************:************
SPP00000115_1.0 RRGPSSGGUN
SPP00000115_1.0.12.genewise RRGPSAGGU-
*****:**
......................................................................................................................................................................................................................................................
RESULTADOS DEL SECISearch
>12:subseq(17656982,10000):[5995,5897] [5897 - 5995] (SECIS on complementary strand) - Free Energy: -17.00 UGGAAUAGUCUCUGUGACAAGCAGCUUUGUAUGAUGUUUUCCUUACAAAUGGUAAACAAACCAAUGAGGAUUACUGAUGCUAGACAGCAGAUGAGGGUU
_[5995,5897].png)
......................................................................................................................................................................................................................................................
RESULTADOS DEL Selenoprofiles
Output_id: SelS.3.selenocysteine
---------- ---------------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (-) 12
-Program genewise
-Query name gi|67191194|ref|NP_001019905.1| selenoprotein S [Gallus gallus]
-Query range 73-194 length:194 coverage: 0.63
-Profile range 134-265 length:266 coverage: 0.5 sec_position: [264]
-Average sequence identity with profile: 0.6122 (ignoring gaps: 0.6312)
-State kept
------- alignment -------
Query AVEPDMVVRRQEALLASRLRMQEELNAQAERYKEKQRQ <---Intron---> LEEQKRRQKIEMWESMQEGKSYKGNLKLSQ <---Intron--->
//|||||||||||||||||||||||||||||||||||| < 880bp > |||||||||||||||||||||||||||||| < 102bp >
Target SLEPDMVVRRQEALLASRLRMQEELNAQAERYKEKQRQ LEEQKRRQKIEMWESMQEGKSYKGNLKLSQ
tcgcgaggaacggttgtccaacggcagcggatagacac cggcacacaagatgaacggaatagacacac
ctacatttggaacttccgtgtaaatacacagaaaaaga taaaaggaatatgagtaagagaagatatga
cagtcggaaaaatggattcggagggtaaaaacaaaaag taaggagggaaggatgaaaatcaacgagtg
Query QEAESGASTSSAVPKSKPNKKPLRGGG <---Intron---> YNPLSGEGGGTCSWRPGRRGPSAGGUG
||||||||||||||||||||||||||| < 2140bp > |||||||||||||||||||||||||||
Target QEAESGASTSSAVPKSKPNKKPLRGGG YNPLSGEGGGTCSWRPGRRGPSAGGUG
cgggtggtattggcatacaaactcggg tacctgggggatttacgcagctgggtg
aacacgcccccctcacacaaactggg gaactcgagggcgcggcggggcccgggg
aaaattcccaaacgataacggcgaat ttccgtaaatattcgaactgcctataac
*
------- positions -------
Exon 1 17666872 17666985
Exon 2 17665902 17665991
Exon 3 17665721 17665799
Exon 4 17663498 17663580
--------- SECIS ---------
>SelS.3.selenocysteine.esecis:str.1 chromosome:12 strand:- positions:17662878-17662978 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:522 distance_from_cds:519
GUGGAAUAGU CUCUGUGA CAAGCAGCUUUGU AUGAU GUUUUCCUUAC AA AUGGUAAACAAACCAA UGAGGAUUAC UGAU GCUA GACAGCAG AUGAGGGUUU
..(((....) ))((((.. ...))))(((((( .(((( ((..((((((. .. .((((......)))). ))))))..)) )))) (((. ...))).. ))))))....
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
TAA
*
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