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 symbol: CWC22
• Ensembl ID: ENSOGAG00000015287
• Aliases: None
• Description: CWC22 spliceosome-associated protein homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:29322]

Sequence

>retro_ogar_3200
AAGGACTACCCCATTACCCTAGGAGGACTTGACCTAGTGGAGGAAGATGATCAGTTCACCCATATGCTCCCTTTGGAGTA
TGACTACACTCCAGAAGATGTTCTTAATGTTTTCCATTTGGATCCTAATTTTACAGAGAATGAAGAGAAGTACAGAACTA
TTAAGAAGGAAATTCTTGATGAAGGAGACAGCGATTCAAACACAGACCAAGATGCTGGAATGAGTGAAGAAGAAGAAGAG
GGAGAGGAGGAAAAGGGAGAAGAAGATGAAGAAGGACACAAAATGACTATTCATGACAAAACAGAAACTAATCTGGTCTC
ATTTCATCATATAATTTATCTTTCTATTCAATCAAGTTTAGATTTTGAAGAATGTGCTCACAAATTGCTGAATATGGAGT
TCCCTGAAAGTCAAACCAAAGAACTCTGCAACATGATACTTGATTGCTGTGCTCAACAAAGGACATACGAGAATTTTTTT
GGCTTATTAGCTGGGAGATTTTTCATGCTAAAAAAAGAGTACATGGAATCCTCTGAAAGTATGTTCAAAGGACAATATGA
TACCATCCATCGGTTAGAAACAAACAAACTGAGAAATGTTGCTAAGATGTTTGCTTACCTTTTGTACACTGATTCCCTCC
CATGGAGCATTCTAGAATGTATAAAACTGAGCAAAGAAACCACCATATCATCCAGTAGAATTATGGTAAAAATATTATTC
CAGGAACTATGTGAATACAAGGGTCTCCTTAATCTTCAAGCAAGGTTAGAAGATGAAACTCTATAGCCATTCTTTGAAGG
ACTATTATCCCGAGATAATCCAAGAAACACTCATTTGCCATTAACTTCTTTACTTCAATAGGTCTTGGGGGTTTAACAGA
TGAATTGCGTGAGCATCTCAAAAATATGCCAAAGGTCATCTGTGGCACAGAAACCAAATGTTGAGAAAAATAAATCCTCC
CCATCGTCTTCCTCTTTCAGTGTCCTCCTCTTCAGAGTCTGACTCCTCCGACTCTGATTCTGACCAGCAGCAATAGCAGC
TCAGAGTCTTCCAGTGAAGAGAGTGATTCTTCATCTACCAGCAGTCATGGCTCTGCCTCAGCTAAAGATATAAGGAAGAA
GAGACAAAGGAAGACCAGAAGTAAAGAAGTAGATCAACTGATCAGGAGCCAACAAACAAATGATAGAAAACATGAAGAAA
GAAGACTACAACACAGGGACCAGGAAACAAGGCCTGAGAGAGACAGACGGTCAGAAAAACAGAGATCGATATTCAGGAGA
TTCAAATGGGAGAGATTCCATAACAAAGTGCATGTTGGATAGAAGTGTGCCCCTGAACGAAATAATGACAGTAGAGTTGT
GAATGACAGAGATCAGGAAATGTACAGAGATTTGGAGAATAAGCGTGATGATCACAAAAAGAAAAGAGGAGAGAGAAGAA
ATTCTTTTTCTGAAAATGAGAAGCACAGACATTGAAATAAGGACAATGAAAATTTTAGAAGAAGAGAGAGATCAAAGTCA
AGGGAAACAGAAAGA

Alignment

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_3200 was not experimentally validated.

Homology

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	retro_cpor_1136,
Myotis lucifugus	ENSMLUG00000013437	1 retrocopy	retro_mluc_207,
Otolemur garnettii	ENSOGAG00000015287	1 retrocopy	retro_ogar_3200 ,