RetrogeneDB ID: retro_ttru_269

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1736:704929..706336(+)
• Located in intron of: ENSTTRG00000005459

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: EIF2B4
• Ensembl ID: ENSTTRG00000012518
• Aliases: None
• Description: eukaryotic translation initiation factor 2B, subunit 4 delta, 67kDa [Source:HGNC Symbol;Acc:3260]

Sequence

>retro_ttru_269
GGGGAAGAACCAGAAACTGGCTCTGCTGTATCTGCAGCCCAATGTCAAGGCCCGACCAAAGACCTGCCTGGACTGGACAG
TCAGTTGGGCAGTGCCAAGGAGAAAGTTCCAGCAGGTGGGAGTAAGGCTGAACTTCGAGCTGAAAGGCGGGCCAAGCAGG
AGGCTGAGCGGGCCCTGAAGCAGGCAAGAAAAGGGGACCAAGGAGGGCCACCTCCTCAGGCCTGCCCCAGCACAGCTGGA
GAAACCCCCTCAGGAGTGAAGGGTCTACCCGAGCAGAGTCAGGTTGATGACTCCACGCTTCTGAGGAGGCTTGTTAAAAA
ACCAGAACGACAGCAGGTTCCTACACGAAAGGATTATGGACCCAAAGTCAGTCTCTTCTCCCACCTACCCCAGCACAGCA
GACAGAACTCTCTGAGCCAGTTTATGAGCATCCCATCCTCTGTGACCCCCCCAGCCGTGGTGCGACTCGGCCTGCAGTAC
TCCCAGGGCCTGGTCAGTGGCTCCCATGCCCAGTGCATTGCCTGCTTCGTGCCTTGCAGCAGGTGATTCAGGACTACACC
CCACCTCCCAGTGAAGAACTGTCAAGGGACCTAGTGAATAAACTAAAGCCCTACTTCAGCTTCCTGACTCAGTGCCGTCC
CCTGTCAGCGAGCATGTACAACGCCATCAAGTTCCTTAACAAGGAGATCACGGGTGTGAGCGGCTCCAAGCGGGAAGAGG
AGGCCGAGTCAGAACTTCGAGCAGCCATCGGACCATATGTGCGAGAGAAGATTGTGCTTGCAGCCCAGGCAATCTCACGC
TTTGCTTATGAGAAGACCAGTAATGGAGATGTGATCCTGATATATAGATGCTCATCTCTGGTATCACGAATTCTTCAGGA
GGCTTGGGCTACGGGCGGGCGGTTTCGGATGGTAGTGGTGGACAGCCGGCCACAGCTGGAGGGAAAGCACACGCTACGTT
CTCTGGTCCGTGCTGGGGTCCCTGCCTCCTACCTGCTGATTCCTGCAGCTTCCTTTGTGCTCCCAGAGGTTTCTAAGGTG
CTGTTGGGAGCTCATGCACTCCTGGCCAACAGGTCTGTGATGTCACGGGTAGGGACAGCACAGCTGGCCCTGGTGGCACG
GGCCCATAATGTGCCAGTGCTGGTCTGCTGTGAAACATACAAGTTTTGCGAGCGTGTGCGGACTGATGCCTTTGTCTCTA
ATGAGCTAGATGACCTTGACGATCTGCTGTGTGAGCGAGGAGAACGTGTGGTCTTGGCTGACTGGCAGAACCACTCGTCC
CTATGGTTGTCGAATCTGGTCTATGATATGACCCCCCCCAGAACTGGTGGATCTGGTGATCACGGAGCTGGGCATGATCC
CTTGCAGTTCTGTACCTGTTGTGCTGCGAGTCAAGAGTAGTGACCAG

Alignment

ORF - retro_ttru_269 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.47 %
• Parental protein coverage: 89.69 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GAEPETGSAVSAAQCQAGPTKDLPGLDSQLGSAKEKVPAGRSKAELRAERRAKQEAERALKQARKGDQGG
          G.EPETGSAVSAAQCQ.GPTKDLPGLDSQLGSAKEKVPAG.SKAELRAERRAKQEAERALKQARKGDQGG
Retrocopy GEEPETGSAVSAAQCQ-GPTKDLPGLDSQLGSAKEKVPAGGSKAELRAERRAKQEAERALKQARKGDQGG

Parental  PPPQACPSTAGETPSGVKRLPEHSQVDDPTLLRRLVKKTERQQVPTRKDYGSKVSLFSHLPQYSRQNSLT
          PPPQACPSTAGETPSGVK.LPE.SQVDD.TLLRRLVKK.ERQQVPTRKDYG.KVSLFSHLPQ.SRQNSL.
Retrocopy PPPQACPSTAGETPSGVKGLPEQSQVDDSTLLRRLVKKPERQQVPTRKDYGPKVSLFSHLPQHSRQNSLS

Parental  QFMSIPSSVIHPAMVRLGLQYSQGLVSGSNARCIA-LLRALQQVIQDYTTPPSEELSRDLVNKLKPYFSF
          QFMSIPSSV..PA.VRLGLQYSQGLVSGS.A.CIA.LLRALQQVIQDYT.PPSEELSRDLVNKLKPYFSF
Retrocopy QFMSIPSSVTPPAVVRLGLQYSQGLVSGSHAQCIA<LLRALQQVIQDYTPPPSEELSRDLVNKLKPYFSF

Parental  LTQCRPLSASMYNAIKFLNKEITGVSSSKREEEAKSELRAAIDRYVQEKIVLAAQAISRSAYEKISNGDV
          LTQCRPLSASMYNAIKFLNKEITGVS.SKREEEA.SELRAAI..YV.EKIVLAAQAISR.AYEK.SNGDV
Retrocopy LTQCRPLSASMYNAIKFLNKEITGVSGSKREEEAESELRAAIGPYVREKIVLAAQAISRFAYEKTSNGDV

Parental  ILVYGRSSLVSRILQEAWAKGRRFRVVVVDSRPRLEGKHTLRFLVRAGVPASYLLIPAASYVLPEVSKLL
          IL.Y..SSLVSRILQEAWA.G.RFR.VVVDSRP.LEGKHTLR.LVRAGVPASYLLIPAAS.VLPEVSK.L
Retrocopy ILIYRCSSLVSRILQEAWATGGRFRMVVVDSRPQLEGKHTLRSLVRAGVPASYLLIPAASFVLPEVSKVL

Parental  LGAHALLANGSVMSRVGTAQLALVARAHNVPVLVCCETYKFCERVQTDAFVSNELDDPDDLLCERGERVA
          LGAHALLAN.SVMSRVGTAQLALVARAHNVPVLVCCETYKFCERV.TDAFVSNELDD.DDLLCERGERV.
Retrocopy LGAHALLANRSVMSRVGTAQLALVARAHNVPVLVCCETYKFCERVRTDAFVSNELDDLDDLLCERGERVV

Parental  LADWQNHSSLRLLNLVYDV-TPPELVDLVITELGMIPCSSVPVVLRVKSSDQ
          LADWQNHSSL.L.NLVYD.....ELVDLVITELGMIPCSSVPVVLRVKSSDQ
Retrocopy LADWQNHSSLWLSNLVYDM>XXXELVDLVITELGMIPCSSVPVVLRVKSSDQ

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_269 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_269 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus 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
Tursiops truncatus	ENSTTRG00000012518	1 retrocopy	retro_ttru_269 ,