RetrogeneDB ID: retro_ogar_12

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873550.1:6513791..6514898(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000009050
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ZSCAN23
• Ensembl ID: ENSOGAG00000006605
• Aliases: None
• Description: zinc finger and SCAN domain containing 23 [Source:HGNC Symbol;Acc:21193]

Sequence

>retro_ogar_12
ATGTCTGCACAGTCAGTGGAAGAAGATTCAATACTTATCATCCCGCCTCCAGATGAAGATGAAAAAATTCTGAGAGTAAA
GTTGGAGGAGGATCCTGATGGTGAAGAGGGATCAAGTATTCCTTGGAACCATCTCCCTGACCCAGAGGTTTTTCGACAGC
GATTCAGGCAGTTTGGATACCAGGATTCACCTGGGCCCCGTGAAGCTGTGAGCCAGCTCCGAGAACTTTGTCGTCTATGG
CTTAGGCCAGAGACACACACGAAAGAACAAATCTTAGAGCTGGTTGTGCTGGAACAGTTTGTTGCCATCCTACCCAAGGA
GCTACAGACTTGGGTTCGCGATCATCATCCAGAGAATGGAGAGGAGGCAGTGACAGTGCTAGAGGATTTGGAGAGTGAAC
TTGATGACCCTGGACAGCCGGTTTCTCTCCGTCGACGAAAACGGGAAGTGCTAGTAGAGGAGATAGTATCTCAAGAAGAA
GCTCAGGGGTTACCAAGTTCTGAGCTTGATGCTGTGGAGAACCAGCTCAAATGGGCATCCTGGGAGCTCCATTCCCTCAG
GCACTGTGATGATGATGCTAGGACTGAAAATGGAGCTTTAGCGCCAAAGCAGGAGACTCCTTCAGCAGTAGAATCTCATG
AAACTCCTGGCATACTCAATATGGGTGTTCCTCAGATTTTTAAATATGGAGAAGGCTGTTTTCCCAAGGGCAGGTTTGAA
AGAAAGAGAAATCCCTCTCGAAAGAAACAACATATATGTGATGAATGTGGAAAACACTTCAGTCAGGGCTCAGCCCTTAT
TCTTCATCAAAGAATTCACAGTGGGGAGAAACCTTACGGATGTGTTGAGTGTGGGAAAGCATTCAGCCGAAGTTCCATCC
TTGTGCAACACCAGAGAGTCCATACTGGAGAAAAACCTTACAAATGTCTTGAATGTGGGAAAGCCTTTAGCCAGAATTCT
GGGCTTATTAATCACCAGAGAATACATACTGGGGAGAAACCTTATGAATGTGTTCAGTGTGGGAAATCCTATAGTCAAAG
CTCCAATCTTTTTAGACATCAGAGAAGACACAATGCAGAAAAACTTCTGAATGTTGTGAAAGTTTAA

Alignment

ORF - retro_ogar_12 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.86 %
• Parental protein coverage: 91.12 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DMQEEPLTVKVKEEEEDHSCGPESGLSRNNCYTAEIFRRRFRQFCYQETPGPREALRRLRELCHQWLRPE
          D..E..L.VK..E..........S....N.....E.FR.RFRQF.YQ..PGPREA...LRELC..WLRPE
Retrocopy DEDEKILRVKLEEDPDGEE---GSSIPWNHLPDPEVFRQRFRQFGYQDSPGPREAVSQLRELCRLWLRPE

Parental  VHTKEQILELLVLEQFLTILPEELQAWMREHHPMSGEEAVTVLEDLEQELDEPGEQVLTHAHEEEKFVKE
          .HTKEQILEL.VLEQF..ILP.ELQ.W.R.HHP..GEEAVTVLEDLE.ELD.PG..V.......E..V.E
Retrocopy THTKEQILELVVLEQFVAILPKELQTWVRDHHPENGEEAVTVLEDLESELDDPGQPVSLRRRKREVLVEE

Parental  KATPGANQESSGGQFQTLEEQLPCNLQEMCPVQEIDGKARTWNVELAPKREISKEIKSHVQVSGKLNGDI
          .......Q..........E.QL.....E.......D..ART.N..LAPK.E......SH....G.LN...
Retrocopy IVSQEEAQGLPSSELDAVENQLKWASWELHSLRHCDDDARTENGALAPKQETPSAVESH-ETPGILNMGV

Parental  SQMTECGDICDREGRLERQRVSSSADRPYICGECGKSFTQNSILIEHQRTHTGEKPYECDECGRAFSQRS
          .Q....G..C...GR.ER.R...S.....IC.ECGK.F.Q.S.LI.HQR.H.GEKPY.C.ECG.AFS..S
Retrocopy PQIFKYGEGCFPKGRFERKR-NPSRKKQHICDECGKHFSQGSALILHQRIHSGEKPYGCVECGKAFSRSS

Parental  GLFQHQRLHTGEKRYQCSVCGKAFSQNAGLFHHLRIHTGEKPYQCNQCNKSFSRRSVLIKHHRIHTGER
          .L.QHQR.HTGEK.Y.C..CGKAFSQN.GL..H.RIHTGEKPY.C.QC.KS.S..S.L..H.R.H..E.
Retrocopy ILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIHTGEKPYECVQCGKSYSQSSNLFRHQRRHNAEK

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_12 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000006605	1 retrocopy	retro_ogar_12 ,
Otolemur garnettii	ENSOGAG00000016311	1 retrocopy	retro_ogar_705,