SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Selenoprotein U1 (SelU1)
| DESCRIPCIÓN | Selenoproteína. 8(-):1361244...1355117. |
| SECISearch | Un elemento predicho en la cadena antisense. 8:subseq(1351244,10000):[3686,3599] |
| SELENOPROFILES | Encontrada. Elección: Exonerate. Predicción elemento SECIS (strand:- positions:1354842-1354931). |
| COMENTARIOS | Elección: El alineamiento de las predicciones de Exonerate y Genewise obtuvieron el mismo score pero por defecto reportamos el alineamiento de genewise. En Meleagris gallopavo se ha encontrado una selenocisteína mientras que en las proteínas de SELENODB tenemos homólogos en cisteína. |
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=96, Nseq=6, Len=241
SPP00000026_1.0 MSFLQDPSFFTMGMWSIGAGALGAAALALLLANTDVFLSKPQ-KAALEYLEDIDLKTLEK
SPP00000026_1.0.8.exonerate MSFLPDFGIFTMGMWSVGLGAIGAAITGIVLANTDLFLSKAE-KATLEFLEGIELKTLGS
SPP00000026_1.0.8.genewise MSFLPDFGIFTMGMWSVGLGAIGAAITGIVLANTDLFLSKAE-KATLEFLEGIELKTLGS
SPP00000062_1.0 MAFL-------------GYGAAAALGGALVYANLPTYLTIGAVAPTFAHLAAAKLVPIRG
SPP00000062_1.0.8.exonerate ------------------------------------------------------------
SPP00000062_1.0.8.genewise ------------------------------------------------------------
SPP00000026_1.0 EP---------RTFKAKELWEKNGAVIMAVRRPGCFLCREEAADLSSLKSMLDQLGVPLY
SPP00000026_1.0.8.genewise EP---------RTFKASELWKKNGAVIMAVRRPGUFLCREEASELSSLKPQLSKLGVPLY
SPP00000026_1.0.8.exonerate EP---------RTFKASELWKKNGAVIMAVRRPGUFLCREEASELSSLKPQLSKLGVPLY
SPP00000062_1.0 GPKEKEVVERNEQFTADSLFKKGPIMVMAVRRPGCMLCRREAAELHTLLPLLKEKGIELA
SPP00000062_1.0.8.exonerate -------------FKASELWKKNGAVIMAVRRPGUFLCREEASELSSLKPQLSKLGVPLY
SPP00000062_1.0.8.genewise ---------------------------------------QEASELSSLKPQLSKLGVPLY
.**::* :* . *.: *: *
SPP00000026_1.0 AVVKEHIRTEVKDFQPYFK-GEIFLDEKKKFYGPQRRKM-MFMGFIRLGVWYNFFRAWNG
SPP00000026_1.0.8.exonerate AVVKEKIGTEVEDFQHYFK-GEIFLDEKRSFYGPRKRKM-MLSGFFRIGVWQNFFRAWKN
SPP00000026_1.0.8.genewise AVVKEKIGTEVEDFQHYFK-GEIFLDEKRSFYGPRKRKM-MLSGFFRIGVWQNFFRAWKN
SPP00000062_1.0 AVVHETRGA--NEFKSWFSGGDVYLDTDRTFYGPNERWLPVWMGFLRFGTYSNVYKAKKA
SPP00000062_1.0.8.exonerate AVVKEKIGTEVEDFQHYFK-GEIFLDEKRSFYGPRKRKM-MLSGFFRIGVWQNFFRAWKN
SPP00000062_1.0.8.genewise AVVKEKIGTEVEDFQHYFK-GEIFLDEKRSFYGPRKRKM-MLSGFFRIGVWQNFFRAWKN
***:* : ::*: :*. *:::** .:.****..* : : **:*:*.: *.::* :
SPP00000026_1.0 GFSGNLEGEGFILGGVFVVGSGKQGILLEHREKEFGDKVNLLSVLEAAKMIKPQTLASEK
SPP00000026_1.0.8.exonerate GYSGNLEGEGFTLGGVYVIGAGRQGVLLEHREKEFGDKVSLPSVLEAAEKIKPQA-SSAE
SPP00000026_1.0.8.genewise GYSGNLEGEGFTLGGVYVIGAGRQGVLLEHREKEFGDKVSLPSVLEAAEKIKPQA-SSAE
SPP00000062_1.0 KVEGNMEGEGRLLGGVYLIANN--DIVFTHLEKEWGDAADIKEVRAAVEKF-----SEKS
SPP00000062_1.0.8.exonerate GYSGNLEGEGFTLGGVYVIGAGRQP--LTQEESAWGDSAD--------------------
SPP00000062_1.0.8.genewise GYSGNLEGEGFTLGGVYVI-----------------------------------------
.**:**** ****:::
SPP00000026_1.0 K
SPP00000026_1.0.8.exonerate K
SPP00000026_1.0.8.genewise K
SPP00000062_1.0 K
SPP00000062_1.0.8.exonerate L
SPP00000062_1.0.8.genewise -
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=98, Nseq=2, Len=229
SPP00000026_1.0 MSFLQDPSFFTMGMWSIGAGALGAAALALLLANTDVFLSKPQKAALEYLEDIDLKTLEKE
SPP00000026_1.0.8.genewise MSFLPDFGIFTMGMWSVGLGAIGAAITGIVLANTDLFLSKAEKATLEFLEGIELKTLGSE
**** * .:*******:* **:*** .::*****:****.:**:**:**.*:**** .*
SPP00000026_1.0 PRTFKAKELWEKNGAVIMAVRRPGCFLCREEAADLSSLKSMLDQLGVPLYAVVKEHIRTE
SPP00000026_1.0.8.genewise PRTFKASELWKKNGAVIMAVRRPGUFLCREEASELSSLKPQLSKLGVPLYAVVKEKIGTE
******.***:************* *******::*****. *.:***********:* **
SPP00000026_1.0 VKDFQPYFKGEIFLDEKKKFYGPQRRKMMFMGFIRLGVWYNFFRAWNGGFSGNLEGEGFI
SPP00000026_1.0.8.genewise VEDFQHYFKGEIFLDEKRSFYGPRKRKMMLSGFFRIGVWQNFFRAWKNGYSGNLEGEGFT
*:*** ***********:.****::****: **:*:*** ******:.*:*********
SPP00000026_1.0 LGGVFVVGSGKQGILLEHREKEFGDKVNLLSVLEAAKMIKPQTLASEKK
SPP00000026_1.0.8.genewise LGGVYVIGAGRQGVLLEHREKEFGDKVSLPSVLEAAEKIKPQA-SSAEK
****:*:*:*:**:*************.* ******: ****: :* :*
......................................................................................................................................................................................................................................................
RESULTADOS DEL SECISearch
>8:subseq(1351244,10000):[3686,3599] [3599 - 3686] (SECIS on complementary strand) - Free Energy: -27.23 UCAGCUGACCUUUUGUGUCUGACUGUAUUAAUGAAAGGCUGGGUCUAAAAUCUGACGUAGCCUAGAUGUUUUCAGUCAGAGACAGUCG
_[3686,3599].png)
......................................................................................................................................................................................................................................................
RESULTADOS DEL Selenoprofiles
Output_id: SelU.2.selenocysteine
---------- ---------------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (-) 8
-Program exonerate
-Query name gi|126272928|ref|XP_001370596.1| PREDICTED: similar to SFLQ611 [Monodelphis domestica]
-Query range 1-227 length:229 coverage: 0.99
-Profile range 1-583 length:585 coverage: 1.0 sec_position: [286]
-Average sequence identity with profile: 0.2949 (ignoring gaps: 0.4179)
-State kept
------- alignment -------
Query MSFL-DLNFFSMSMWSLGAGALGAAALSLILANTDLFLTKSVDATLEFLEEIQLKTLDNE <---Intron---> SPKTFKARELWEHRGAVIMAVRRP
|||| | |/| |||/| ||/||| //||||||||/|/ ||||||| |/|||| / < 490bp > |/|||| |||/ ||||||||||
Target MSFLPDFGIFTMGMWSVGLGAIGAAITGIVLANTDLFLSKAEKATLEFLEGIELKTLGSA EPRTFKASELWKKNGAVIMAVRRP
attccgtgataagattggcggagggaagagcgaagttttaggagacgttggagcaatgtg gcaatagagctaaagggaaggcac
tcttcatgttctgtgctgtgctgcctcgtttcacatttcacaacctattagtatactgc cacgctacgatgaaagctttctggc
gccatctgcctgcgggttcacctacaagtgtcctcatgcgaaaaaaatgggagaatgaa agaaacaataggggttagcgtgaat
Query GUFLCRE <---Intron---> EAADLSALKPQLDLLGVPLYAVVKEKIGSEVENFQPYFKGKIFLDER <---Intron---> KKFYGPQKRKMMFM
||||||| < 3637bp > ||//||/||||| ||||||||||||||/|||/|| ||||/|||||/ < 1190bp > / ||||/|||||
Target GUFLCRE EASELSSLKPQLSKLGVPLYAVVKEKIGTEVEDFQHYFKGEIFLDEK RSFYGPRKRKMMLS
gttttag ggtgcttcaccctacggcctgggagaagaggggtccttaggatcgga aattgccacaaact
ggttgga accatcctacatcatgtctacttaaatgcataataaatagatttaaa ggtagcgagatttc
aatgcag gttgtctgatggcggtttctttaaggagcatgttgttcaaactgtag acctcacaaaggga
*
Query GFVRLGVWQNFFRARSKGFSGNLEGEGFVLGGVYVIGPGKQ <---Intron---> GILLEHREKEFGDKVNPASVLEAAKKIKPHTSTSE
|| |/||||||||| |/||||||||| |||||||| |/| < 124bp > |/|||||||||||||/ ||||||/|||| |//|
Target GFFRIGVWQNFFRAWKNGYSGNLEGEGFTLGGVYVIGAGRQ GVLLEHREKEFGDKVSLPSVLEAAEKIKPQASSAE
gttcaggtcattcgtaagtagacggggtacgggtgagggac ggctgccgagtggagacctgcggggaaaccgttgg
gttgtgtgaattgcgaagaggatagagtctggtattgcgga gtttaagaaatgaatgtccttaccaatacacccca
ccccttcgatccttgatttttcgaaagctgaaatgtaaaag ttaggttgagttcacctatctatcggagagtaata
------- positions -------
Exon 1 1361067 1361244
Exon 2 1360482 1360576
Exon 3 1356704 1356844
Exon 4 1355349 1355513
Exon 5 1355120 1355224
--------- SECIS ---------
>SelU.2.selenocysteine.esecis:str.1 chromosome:8 strand:- positions:1354842-1354931 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:614 distance_from_cds:188
UUCAGCUGAC CUUUUGUG UCUGACUGUAUUA AUGAA AGGCUGGGUCU AA AAUCU GACGUAGCCU AGAU GUUU UCAGUCAG AGACAGUCGG
.....((((( ....(((. ((((((((....( .(((( ((((((.(((. .. ..... ))).)))))) )))) .).. .))))))) ).))))))))
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
AAATAG
K *
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