RetrogeneDB ID: | retro_ogar_3200 | ||
Retrocopy location | Organism: | Bushbaby (Otolemur garnettii) | |
| Coordinates: | GL873740.1:964372..965907(+) | ||
| Located in intron of: | ENSOGAG00000031231 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CWC22 | ||
| Ensembl ID: | ENSOGAG00000015287 | ||
| Aliases: | None | ||
| Description: | CWC22 spliceosome-associated protein homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:29322] |
Retrocopy-Parental alignment summary:
>retro_ogar_3200
AAGGACTACCCCATTACCCTAGGAGGACTTGACCTAGTGGAGGAAGATGATCAGTTCACCCATATGCTCCCTTTGGAGTA
TGACTACACTCCAGAAGATGTTCTTAATGTTTTCCATTTGGATCCTAATTTTACAGAGAATGAAGAGAAGTACAGAACTA
TTAAGAAGGAAATTCTTGATGAAGGAGACAGCGATTCAAACACAGACCAAGATGCTGGAATGAGTGAAGAAGAAGAAGAG
GGAGAGGAGGAAAAGGGAGAAGAAGATGAAGAAGGACACAAAATGACTATTCATGACAAAACAGAAACTAATCTGGTCTC
ATTTCATCATATAATTTATCTTTCTATTCAATCAAGTTTAGATTTTGAAGAATGTGCTCACAAATTGCTGAATATGGAGT
TCCCTGAAAGTCAAACCAAAGAACTCTGCAACATGATACTTGATTGCTGTGCTCAACAAAGGACATACGAGAATTTTTTT
GGCTTATTAGCTGGGAGATTTTTCATGCTAAAAAAAGAGTACATGGAATCCTCTGAAAGTATGTTCAAAGGACAATATGA
TACCATCCATCGGTTAGAAACAAACAAACTGAGAAATGTTGCTAAGATGTTTGCTTACCTTTTGTACACTGATTCCCTCC
CATGGAGCATTCTAGAATGTATAAAACTGAGCAAAGAAACCACCATATCATCCAGTAGAATTATGGTAAAAATATTATTC
CAGGAACTATGTGAATACAAGGGTCTCCTTAATCTTCAAGCAAGGTTAGAAGATGAAACTCTATAGCCATTCTTTGAAGG
ACTATTATCCCGAGATAATCCAAGAAACACTCATTTGCCATTAACTTCTTTACTTCAATAGGTCTTGGGGGTTTAACAGA
TGAATTGCGTGAGCATCTCAAAAATATGCCAAAGGTCATCTGTGGCACAGAAACCAAATGTTGAGAAAAATAAATCCTCC
CCATCGTCTTCCTCTTTCAGTGTCCTCCTCTTCAGAGTCTGACTCCTCCGACTCTGATTCTGACCAGCAGCAATAGCAGC
TCAGAGTCTTCCAGTGAAGAGAGTGATTCTTCATCTACCAGCAGTCATGGCTCTGCCTCAGCTAAAGATATAAGGAAGAA
GAGACAAAGGAAGACCAGAAGTAAAGAAGTAGATCAACTGATCAGGAGCCAACAAACAAATGATAGAAAACATGAAGAAA
GAAGACTACAACACAGGGACCAGGAAACAAGGCCTGAGAGAGACAGACGGTCAGAAAAACAGAGATCGATATTCAGGAGA
TTCAAATGGGAGAGATTCCATAACAAAGTGCATGTTGGATAGAAGTGTGCCCCTGAACGAAATAATGACAGTAGAGTTGT
GAATGACAGAGATCAGGAAATGTACAGAGATTTGGAGAATAAGCGTGATGATCACAAAAAGAAAAGAGGAGAGAGAAGAA
ATTCTTTTTCTGAAAATGAGAAGCACAGACATTGAAATAAGGACAATGAAAATTTTAGAAGAAGAGAGAGATCAAAGTCA
AGGGAAACAGAAAGA
ORF - retro_ogar_3200 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.81 % |
| Parental protein coverage: | 56.33 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | KDHPIILDGLDLVEEDDQFTHMLPLEDDYNPEDVLNVFKMDPNFMENEEKYKTIKKEILDEGDSDSNTDQ |
| KD.PI.L.GLDLVEEDDQFTHMLPLE.DY.PEDVLNVF..DPNF.ENEEKY.TIKKEILDEGDSDSNTDQ | |
| Retrocopy | KDYPITLGGLDLVEEDDQFTHMLPLEYDYTPEDVLNVFHLDPNFTENEEKYRTIKKEILDEGDSDSNTDQ |
| Parental | DAGSSEEEEEEEEEEGEEDEEGQKVTIHDKTEINLVSFRRTIYLAIQSSLDFEECAHKLLKMEFPESQTK |
| DAG.S..................K.TIHDKTE.NLVSF...IYL.IQSSLDFEECAHKLL.MEFPESQTK | |
| Retrocopy | DAGMSXXXXXXXXXXXXXXXXXHKMTIHDKTETNLVSFHHIIYLSIQSSLDFEECAHKLLNMEFPESQTK |
| Parental | ELCNMILDCCAQQRTYEKFFGLLAGRFCMLKKEYMESFESIFKEQYDTIHRLETNKLRNVAKMFAHLLYT |
| ELCNMILDCCAQQRTYE.FFGLLAGRF.MLKKEYMES.ES.FK.QYDTIHRLETNKLRNVAKMFA.LLYT | |
| Retrocopy | ELCNMILDCCAQQRTYENFFGLLAGRFFMLKKEYMESSESMFKGQYDTIHRLETNKLRNVAKMFAYLLYT |
| Parental | DSLPWSVLECIKLSEETTTSSSRIFVKIFFQELCEYMGLPKLNSRLKDETLQPFFEGLLPRDNPRNTR-F |
| DSLPWS.LECIKLS.ETT.SSSRI.VKI.FQELCEY.GL..L..RL.DETL.PFFEGLL.RDNPRNT..F | |
| Retrocopy | DSLPWSILECIKLSKETTISSSRIMVKILFQELCEYKGLLNLQARLEDETL*PFFEGLLSRDNPRNTH<F |
| Parental | AINFFTSIGLGGLTDELREHLKNTPKVI-VAQKPDVEKNKSSPSSSS-SASSSSESDSSDSDSD-SSNSS |
| AINFFTSIGLGGLTDELREHLKN.PKVI.VAQKP.VEKNKSSPSSSS.S.SSSSESDSSDSDSD.SSNSS | |
| Retrocopy | AINFFTSIGLGGLTDELREHLKNMPKVI>VAQKPNVEKNKSSPSSSS>SVSSSSESDSSDSDSD>SSNSS |
| Parental | SESSSEESDSSSTSSRSSASAKDIRKKRQRKTKSKEVDKLIRSQQTNDRKHEERRLEHRHQETRTERDRR |
| SESSSEESDSSSTSS..SASAKDIRKKRQRKT.SKEVD.LIRSQQTNDRKHEERRL.HR.QETR.ERDRR | |
| Retrocopy | SESSSEESDSSSTSSHGSASAKDIRKKRQRKTRSKEVDQLIRSQQTNDRKHEERRLQHRDQETRPERDRR |
| Parental | SEKHRDRNLRDSNGRDPTTKHMSDRSVPPERNNDSRIVNDRDQEMHRDLENKHGDHKKKKGERRNSFSEN |
| SEK.R....R....R.....H......P.ERNNDSR.VNDRDQEM.RDLENK..DHKKK.GERRNSFSEN | |
| Retrocopy | SEKQRSIFRRFKWERFHNKVHVG*KCAP-ERNNDSRVVNDRDQEMYRDLENKRDDHKKKRGERRNSFSEN |
| Parental | EKHRHRNKDNEHFRRRDRSKSRETDR |
| EKHRH.NKDNE.FRRR.RSKSRET.R | |
| Retrocopy | EKHRH*NKDNENFRRRERSKSRETER |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_3200 was not experimentally validated.
Retrocopy orthology:
Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Cavia porcellus | ENSCPOG00000007492 | 1 retrocopy | |
| Myotis lucifugus | ENSMLUG00000013437 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000015287 | 1 retrocopy |
retro_ogar_3200 ,
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