RetrogeneDB ID: retro_chof_828

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_152726:944..1859(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IGF2BP3
• Ensembl ID: ENSCHOG00000002341
• Aliases: None
• Description: insulin-like growth factor 2 mRNA binding protein 3 [Source:HGNC Symbol;Acc:28868]

Sequence

>retro_chof_828
ACAGAAGAGATTCCCTTGAAGATTTTAGCCCATAATAACTTTGTAGGCCGACTTATTGGTAAGGAAGCAAGAAATCTGAA
AAAGATTGAGCAAGATACAGACACTAAAATCACGATATCTCCATTGCAGGAATTGACGCTCTATAATCCGGAACGCACTA
TTACAGTTAAAGGCAATGTTGAAGCATGTGCCACAGCCGAGGAGGAGATAATGAAGAAGATCAGGGAGTCTTATGAAAAT
GATATTGCTTCTATGAACCTTCAAGCACATTTAATTCCTGGATTAAATCCGAGTGCCTTGGGTCTGTTTCCACCCACTTC
AGGATACCACCTCCCGCCTCAGGTCCCCCTTCAGCTATGACTCCTCCCTACCCACAGTTTGAGCAATCAGAAAACAGAGA
CTGTTCATCTGTTTATCCCAGCCCTATAAGTCGGCGCCATTATCGGCAAGCAGGGGCAGCACATCAAACAGCTTTCTCGC
TTTGCAGGAGCTTCTATTAAGATCGCTCCGGCTGAAGCACCAGATCCTAAAGTGAGGATGGTGATTATCACTGGACCTCC
GGAGGCTCAGTTCAAGGCTCAGGGAAGAATTTATGGAAAAATTAAAGAAAACTTTGTTAGTCCTAAAGAAGAGGTGAAAC
TTGAAGCGCATATCAGAGTGCCATCCTTTGCTGCTGGCAGAGTTATTGGAAAAGGACGCAAAACGGTGAATGAGCTCCAG
AATTTGTCAAGTGCAGAAGTTGTTGTCCCTCGTGACCAGACGCCTGATGAGAATGACCAAGTGGTTGTCAAAATAACTGG
TCACTTTTATGCTTGCCAGGTTGCCCAGAGAAAAATTCAGGAAATTCTGACTCAGGTAAAGCAGCATCAACAGCAGAAGG
CTCTGCAAAGTGGACCACCTCAGTCAAGACAGAAA

Alignment

ORF - retro_chof_828 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.78 %
• Parental protein coverage: 52.85 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TEEIPLKILAHNNFVGRLIGKEGRNLKKIEQDTDTKITISPLQELTLYNPERTITVKGNVETCAKAEEEI
          TEEIPLKILAHNNFVGRLIGKE.RNLKKIEQDTDTKITISPLQELTLYNPERTITVKGNVE.CA.AEEEI
Retrocopy TEEIPLKILAHNNFVGRLIGKEARNLKKIEQDTDTKITISPLQELTLYNPERTITVKGNVEACATAEEEI

Parental  MKKIRESYENDIASMNLQAHLIPGLNLNALGLFPPTSG-IPPPTSGPPSAMTPPYPQFEQSE-TETVHLF
          MKKIRESYENDIASMNLQAHLIPGLN..ALGLFPPTSG.IPPP.SGPPSAMTPPYPQFEQSE.TETVHLF
Retrocopy MKKIRESYENDIASMNLQAHLIPGLNPSALGLFPPTSG<IPPPASGPPSAMTPPYPQFEQSE>TETVHLF

Parental  IPALSVGAIIGKQGQHIKQLSRFAGASIKIAPAEAPDAKVRMVIITGPPEAQFKAQGRIYGKIKEENFVS
          IPAL.VGAIIGKQGQHIKQLSRFAGASIKIAPAEAPD.KVRMVIITGPPEAQFKAQGRIYGKIK.ENFVS
Retrocopy IPAL*VGAIIGKQGQHIKQLSRFAGASIKIAPAEAPDPKVRMVIITGPPEAQFKAQGRIYGKIK-ENFVS

Parental  PKEEVKLEAHIRVPSFAAGRVIGKGGKTVNELQNLSSAEVVVPRDQTPDENDQVVVKITGHFYACQVAQR
          PKEEVKLEAHIRVPSFAAGRVIGKG.KTVNELQNLSSAEVVVPRDQTPDENDQVVVKITGHFYACQVAQR
Retrocopy PKEEVKLEAHIRVPSFAAGRVIGKGRKTVNELQNLSSAEVVVPRDQTPDENDQVVVKITGHFYACQVAQR

Parental  KIQEILTQVKQHQQQKALQSGPPQSRRK
          KIQEILTQVKQHQQQKALQSGPPQSR.K
Retrocopy KIQEILTQVKQHQQQKALQSGPPQSRQK

Legend:

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

Expression

RNA-Seq

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST

Choloepus hoffmanni was not studied using EST data.

TSS

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab

retro_chof_828 was not experimentally validated.

Homology

Retrocopy orthology:

Choloepus hoffmanni 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002341	1 retrocopy	retro_chof_828 ,
Homo sapiens	ENSG00000136231	1 retrocopy	retro_hsap_3690,
Gorilla gorilla	ENSGGOG00000010286	1 retrocopy	retro_ggor_2520,
Nomascus leucogenys	ENSNLEG00000014780	1 retrocopy	retro_nleu_2277,
Pongo abelii	ENSPPYG00000017730	1 retrocopy	retro_pabe_3023,