RetrogeneDB ID: retro_ogar_1459

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873548.1:1724547..1725799(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000000969
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: IQCC
• Ensembl ID: ENSOGAG00000034718
• Aliases: None
• Description: IQ motif containing C [Source:HGNC Symbol;Acc:25545]

Sequence

>retro_ogar_1459
GATAAAGAACTATTTTCTCCGTGTTCTCCACACCAGGCCTGTGTCCAGGGCTTCTTGGTTTGATTCCAGTTCCAGAGCCT
GCGAGCTGAATATGAGCAATTGTACGAGAGATTAAAGGTGACCCTATTAGGATTCTGTGGACCAATGGATGGATTCCCAG
GCCCCGATTTCTCCCAGAGACAGCAAAATCCTATGGAACTTGGAACATAGGAGAGAGGGTATCAAACCCAGAACAAGAAC
CGAGGAGCCACTTCCCATGTAAAGAGGCTGAGAGAGAGGCCATTTGGGAGGAGATGGGGTTGAAGAAGTTCAGAGAGAGC
TCAGCAAACCCAAGAAATCTCTGCCAAGGTGATGGCCCCTGGCTTCAGGCTGAGCAGAGCAGGAAAACCAGCCAGAAAGA
AATAGGAGACATGATAAGGATGAAGAACCCAGAAACTCCAGATCCAGGACTGCTTCACAGCCATCCTCAGCTTCAGGAGC
TCCAATACCACCACAACCACTTGGCCATGGAACTGCTATGGCTGCAACAGGCCATCAATAGCCATAAGGAGTATGTAATT
CTCAAGCAAACACTGAGATCCCCAGAGAGAGGTCAGACCAGAGACAAGCTCTGCATGTGCCCAGACCGTAGAGGACAGGC
CTGTGACAGCAACCAGTCACAAGTAAGCCCACCACTAAAGGACCAGTTCTATAGAGACAAGACTGTTGGAGAGCTAGACC
ATGCAGATGACTCCTGCCAGAGGGTCAAATCACCCCACAAATCTTCAGAAAGTCTGTCTCCTATACAAAAACAGTTGGAG
CTAAGTGTAGGGAAATGTGCTATAGGAGGGCTAGACCATAGTTTCCTATGCCATCAGACAGCCAGGACAGGTTCCCCAAA
GAGCTTGACAATGGAGGACAGCTGCAGAGGAAACTCCTGGAGGACCAGATCCCCAGATGCCTCAAACCCAGAAACCACTG
TTCCAGGAAGGCTAAGACACAACTTCATATACTCTTTGAGGACCCACATATTGAGAAGTTACCTAGAAGGCTAGATTACA
AAGAGCCTGAATACCAAAGAGCCAGGCCACAAGAAATGGGCCTCTCAGAAGATCATATCAGTTGGGATGGGACCTTGGCA
GGGCCAGAGCATAGTAGCTTGCATCTTTGGAGGACTCAGCAACCCAAAGGCCAAATCCCCCATGATAGACACTCCAGAGA
TGGGACCTCTCATGAGCCTAGTCATGAAGGATGGAAAAACCAGAGGACTACC

Alignment

ORF - retro_ogar_1459 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.91 %
• Parental protein coverage: 92.72 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DRELIRKVSVLQACVRGFLVRRQFQSLRAEYE-AIVREIEGDPVRIQWTKGWIPRPQFLPEKAKSFGTCK
          D.EL....S..QACV.GFLV..QFQSLRAEYE.AIVREI.GDP.RI.WT.GWIPRP.FLPE.AKS.GT..
Retrocopy DKELFSPCSPHQACVQGFLV*FQFQSLRAEYE<AIVREIKGDPIRILWTNGWIPRPRFLPETAKSYGTWN

Parental  VGERVSNPQQEPRSRFPCKEAEREAIWEEMVFKKSRESSANPGNLCRVDSPWLQAEQSRKTSQKEIGDMI
          .GERVSNP.QEPRS.FPCKEAEREAIWEEM..KK.RESSANP.NLC..D.PWLQAEQSRKTSQKEIGDMI
Retrocopy IGERVSNPEQEPRSHFPCKEAEREAIWEEMGLKKFRESSANPRNLCQGDGPWLQAEQSRKTSQKEIGDMI

Parental  RMKNPEATGPGLLHSQPQLQELQYHRSHLAMELLWLQQAINSRKAYLILKQTLSSPEASQTRDKPCMCPD
          RMKNPE...PGLLHS.PQLQELQYH..HLAMELLWLQQAINS.K.Y.ILKQTL.SPE..QTRDK.CMCPD
Retrocopy RMKNPETPDPGLLHSHPQLQELQYHHNHLAMELLWLQQAINSHKEYVILKQTLRSPERGQTRDKLCMCPD

Parental  HGGQACDSDQSQASLPLKNQFYRDKTAGELDHVDYSCQRVKSPHKFSESLSPTQ-KTAGAKYREKCSRRA
          ..GQACDS.QSQ.S.PLK.QFYRDKT.GELDH.D.SCQRVKSPHK.SESLSP.Q.KT.GAK.RE.C.RRA
Retrocopy RRGQACDSNQSQVSPPLKDQFYRDKTVGELDHADDSCQRVKSPHKSSESLSPIQ<KTVGAKCREMCYRRA

Parental  RPQFPMPSDSQAMEDRFTKEPDNGGQLQRKVLEDQTPRCLKPRDHCSRKGKTQLHVLSEDPDTE-FSRGL
          RP.FPMPSDSQ...DRF.KE.DNGGQLQRK.LEDQ.PRCLKPR.HCSRK.KTQLH.L.EDP..E...R.L
Retrocopy RP*FPMPSDSQ---DRFPKELDNGGQLQRKLLEDQIPRCLKPRNHCSRKAKTQLHILFEDPHIEKLPRRL

Parental  DYKEPKYQRARPQELGFSEDHISWDGTLAGPEHSSLHLWRTKPPKGQTPHDRHSREGTSDEPSHEGWKNQ
          DYKEP.YQRARPQE.G.SEDHISWDGTLAGPEHSSLHLWRT..PKGQ.PHDRHSR.GTS.EPSHEGWKNQ
Retrocopy DYKEPEYQRARPQEMGLSEDHISWDGTLAGPEHSSLHLWRTQQPKGQIPHDRHSRDGTSHEPSHEGWKNQ

Parental  RTT
          RTT
Retrocopy RTT

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_1459 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.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000034718	1 retrocopy	retro_ogar_1459 ,