RetrogeneDB ID: retro_nleu_2277

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397340.1:9283694..9285039(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IGF2BP3
• Ensembl ID: ENSNLEG00000014780
• Aliases: None
• Description: None

Sequence

>retro_nleu_2277
GCTAGACAAGCTCTAGACAAACTGAATGGATTTCAGTTAGAGAATTTCACCTTGAAAGTAGCCTATATCCCTGATGAAAT
GGCCGCCCAGCAAAGCCCCTCGCTGCAGCCCCGAGGTCGCCGGGGGCTTGGGCAGAGGGGCTCCTCAAGGCAGGGGTCTC
CAGGATCCGTGTCCAAGCAGAAACCATGTGATTTGCCTCTGCGCCTGCTGGTTCCCACCCAATTTGTTGGAACCATCATG
GGAAAATAAGGTGCCACCATTCGGAACATCACCAAACAGACCCAATCTAAAATCGATGTCCACCGTAAAGAAAATGCAGG
GGCTGCTGAGAAGTCGATTACTATCCTCTTTACTCCTGAAGGCACCTCTGCGGCTTGTAAGTCTATTCTGGAGATTATGC
ACAAGAAAGCTCAAGATATAAAATTCACAGAAGAGATCCCCTTGAAGATTTTAGCTCATAATAACTTTGTTGGCCGTCTT
ATTGGTAAAGAAGGAAGAAATCTCAAAAAAATTGAGCAAGACACAGACACTAAAATCACAATATCTCCATTGCAGGAATT
GACGCTATATAATCCAGAACGCACCATTACAGTTAAAGGCAATGTTGAGACACGTGCCAAAGCTGAGGAAGAGATCATGA
AGAAAATCAGGGAGTCTTAGGAAAATGATACTGCTTCTATGACTCTTCAAGCACATTGAATTCCTGGATTAAATCTGAAC
GCCTTGGGTCTGTTACCACCCACTTCAGGGATGCCACCTCCCACCTCAGCCCTCTTCAGCCATGACTCCTCCCTACCTCC
CTGCAGTCTGAGCAATCAGAAACGGAGACCGTTCATCTGTTTATCCCGGCTCTATCGGTCAGTGCCATCATCGGCAAGCA
GGGCCAGCACATCAAGCAGCTTTCTCGCTTTGCTGGAGCTTCAATTAAGATTGCTCCAGGGGAAGCGCCAGATGCTAAAG
TGAGGATGGTGATTATCACTGGACCACCAGAGGCTCAGTTCAAGGCTCAGGGAAGAATTATGGAAAAATTAAAGAAGAAA
ACTTTGTTAGTCCTAAAGAAGAGGTGAAACTTGAAGCTCATATCAGAGTGCCATCCTTTGCTGCTGGCAGAGTTATTGGA
AAAGGAGGCAAAACGGTGAATGAACTTCAGAATTTGTCAAGTGCAGAAGTTGTTGTCCCTTGTGACCAGACACCTGATGA
GAATGACCAAGTGGTTGTCAAAATAACTGGTCACTTCTATGCTTGCCAGGTTGCCCAGAGAAAAATTCAGGAAATTCTGA
CTCAGGTAAAGCAGCACCAACAACAGAAGGCTCTGCAAAGTGGACCACCTCAGTCAAGACAGAAG

Alignment

ORF - retro_nleu_2277 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.26 %
• Parental protein coverage: 77.37 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ARQALDKLNGFQLENFTLKVAYIPDEMAAQQNPLQQPRGRRGLGQRGSSRQGSPGSLSKQKPCDLPLRLL
          ARQALDKLNGFQLENFTLKVAYIPDEMAAQQ.P..QPRGRRGLGQRGSSRQGSPGS.SKQKPCDLPLRLL
Retrocopy ARQALDKLNGFQLENFTLKVAYIPDEMAAQQSPSLQPRGRRGLGQRGSSRQGSPGSVSKQKPCDLPLRLL

Parental  VPTQFVGAIIGKEGATIRNITKQTQSKIDVHRKENAGAAEKSITILSTPEGTSAACKSILEIMHKEAQDI
          VPTQFVG.I.GK.GATIRNITKQTQSKIDVHRKENAGAAEKSITIL.TPEGTSAACKSILEIMHK.AQDI
Retrocopy VPTQFVGTIMGK*GATIRNITKQTQSKIDVHRKENAGAAEKSITILFTPEGTSAACKSILEIMHKKAQDI

Parental  KFTEEIPLKILAHNNFVGRLIGKEGRNLKKIEQDTDTKITISPLQELTLYNPERTITVKGSVETCAKAEE
          KFTEEIPLKILAHNNFVGRLIGKEGRNLKKIEQDTDTKITISPLQELTLYNPERTITVKG.VET.AKAEE
Retrocopy KFTEEIPLKILAHNNFVGRLIGKEGRNLKKIEQDTDTKITISPLQELTLYNPERTITVKGNVETRAKAEE

Parental  EIMKKIRESYENDIASMNPQTHLIPGLNLNDLGLFPPTSGMPPPTSG-PPSAMT-PPYP-QFEQSETETV
          EIMKKIRES.END.ASM..Q.H.IPGLNLN.LGL.PPTSGM.PP....P.SAMT.P..P.Q.EQSETETV
Retrocopy EIMKKIRES*ENDTASMTLQAH*IPGLNLNALGLLPPTSGM-PPPTS>PSSAMTPPYLP>QSEQSETETV

Parental  HLFIPALSVGAIIGKQGQHIKQLSRFAGASIKIAPAEAPDAKVRMVIITGPPEAQFKAQGRI-YGKIKEE
          HLFIPALSV.AIIGKQGQHIKQLSRFAGASIKIAP.EAPDAKVRMVIITGPPEAQFKAQGRI.YGKIKEE
Retrocopy HLFIPALSVSAIIGKQGQHIKQLSRFAGASIKIAPGEAPDAKVRMVIITGPPEAQFKAQGRI<YGKIKEE

Parental  NFVSPKEEVKLEAHIRVPSFAAGRVIGKGGKTVNELQNLSSAEVVVPRDQTPDENDQVVVKITGHFYACQ
          NFVSPKEEVKLEAHIRVPSFAAGRVIGKGGKTVNELQNLSSAEVVVP.DQTPDENDQVVVKITGHFYACQ
Retrocopy NFVSPKEEVKLEAHIRVPSFAAGRVIGKGGKTVNELQNLSSAEVVVPCDQTPDENDQVVVKITGHFYACQ

Parental  VAQRKIQEILTQVKQHQQQKALQSGPPQSRRK
          VAQRKIQEILTQVKQHQQQKALQSGPPQSR.K
Retrocopy VAQRKIQEILTQVKQHQQQKALQSGPPQSRQK

Legend:

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

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_2277 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys 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,