RetrogeneDB ID: retro_nleu_19

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397281.1:19659966..19661244(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000018734
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CBLL1
• Ensembl ID: ENSNLEG00000008660
• Aliases: None
• Description: None

Sequence

>retro_nleu_19
ATGAACAAGATGCCTGCTGGTGAACAAGAATGTGAATATAACAAAGAAGGGAAGTACTACTCTAAAGGAGTTAAACTGGT
GAGAAAAAAGAAAAGAATTCGTGGTTCACGTTGGGGGGACATTAAGATAAACATCATAGGTGAAAAGGATGATTCACCAA
TTCATTTCTGTGACAAATGTGATTTGCCTATTAAAATCTACGGGCGAATAATTCCATGCAAGCATGCTTTTTGCTATAAC
TGTGCTAATTTATATCACAAAATCGGATATAAAATATGTCCACGCTGTAGTTATCCTGTGCTGCGAATTGAGGCGCATAA
GCGAGGTTCTGTCTTCATGTGTAGTGTTGTTCAGGGATGCAAGAGAACATACTTGTCTCAGAAAAGCTTACAGGCTCATA
TCAAACGCCGCCATAAGAGAGCTCGAAAACAAGTTACCAGTGCTTCGCTTGAAGAAGTTCATCCTCATATTGCACCGCCA
CGAACTGAAATCTCTGAAATCCCTAAAAGACTGCTAGACAGGGACCATCTAAGCTATATTCCACCAGAGCAGCACACCAT
GGTGTCACTACCGTCTGTGCAACATATGCTACACGAGCAACATAATCAGCCACATGAGGATATTCAGGCTCCTCCCCCAG
AACCATCTCTAAGTCCGCCTTTTCCCATCCAGTGGGAAACCGTTAGTATTTTTATGAGAAAACATGGCAATTTAGCAGTT
GATCATATTCAGAATAACTCAGATCCTGGTGCTAAGAAGCCAACACCTCCTGACTATTATCCTGAGTATCAAAGTCAACC
AGCGGTATCGTCCCCTCATCATATTATACCTCAGAAACAGCATTATGCACCACCTCCATCTCCATCATCACCAATAAACC
ATCCAATGCCATATCCTCCTCAGGATGTAGTTACTCCTAACTTGGTTCGTAGCCAAGTGCCAGCTCTAACCACGACCTAT
GATCTATCGTCTAGACATATTATTGTCCAGGTGCCACCTTATATGAATTCTCCTCCACCATGTGCTCCCCAGTCTCAAAA
TGGTAATCCATCTGCAAGTGAATTTGCTTTTCACCATTATAACCCTTACTTTTTACCTCAGTTCACTGAAAATCAAGAAA
CCTTGAGCCCTCAGTTTACACAAACAGATGCAATGGATCATAGAAGATGGCCTGCACAGAAAGGACTGCCACCTTGTCCA
CCAATGCAGAGTCCACCTCCTTCAACCCTACATGGTGGATCACATCATTCATACCAGAGAAGACATAGACCATATTAA

Alignment

ORF - retro_nleu_19 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.04 %
• Parental protein coverage: 84.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KAPPGDEEGFDYNEEERYDCKGGELFGNQRRFPGHLFWDFQINILGEKDDTPVHFCDKCGLPIKIYGRMI
          K.P.G..E...YN.E..Y..KG..L.....R..G....D..INI.GEKDD.P.HFCDKC.LPIKIYGR.I
Retrocopy KMPAGEQE-CEYNKEGKYYSKGVKLVRKKKRIRGSRWGDIKINIIGEKDDSPIHFCDKCDLPIKIYGRII

Parental  PCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCTRGSLFMCSIVQGCKRTYLSQRDLQAHINHRHMRA
          PCKH.FCY.CA.L..K.G.K.CP.CS.PV.RIE...RGS.FMCS.VQGCKRTYLSQ..LQAHI..RH.RA
Retrocopy PCKHAFCYNCANLYHKIGYKICPRCSYPVLRIEAHKRGSVFMCSVVQGCKRTYLSQKSLQAHIKRRHKRA

Parental  GKPVTRASLENVHPPIAPPPTEIPERFIMPPDKHHMSHIPPKQHIMMPPPPLQHVPHEHYNQPHEDIRAP
          .K.VT.ASLE.VHP.IAPP.TEI.E......D..H.S.IPP.QH.M...P..QH..HE..NQPHEDI.AP
Retrocopy RKQVTSASLEEVHPHIAPPRTEISEIPKRLLDRDHLSYIPPEQHTMVSLPSVQHMLHEQHNQPHEDIQAP

Parental  PAELSMAPPPPRSVSQETFRISTRKHSNLITVPIQDDSNSGAREPPPPAPAPAHHHPEYQGQP--VVSHL
          P.E.S..PP.P.....ET..I..RKH.NL....IQ..S..GA..P.PP...P..........P.......
Retrocopy PPEPSLSPPFP--IQWETVSIFMRKHGNLAVDHIQNNSDPGAKKPTPPDYYPEYQSQPAVSSPHHIIPQK

Parental  HHIMP
          .H..P
Retrocopy QHYAP

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_19 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016379	1 retrocopy	retro_cjac_4046,
Homo sapiens	ENSG00000105879	1 retrocopy	retro_hsap_49,
Gorilla gorilla	ENSGGOG00000004921	1 retrocopy	retro_ggor_164,
Microcebus murinus	ENSMICG00000012936	1 retrocopy	retro_mmur_1635,
Nomascus leucogenys	ENSNLEG00000008660	1 retrocopy	retro_nleu_19 ,
Pongo abelii	ENSPPYG00000017904	1 retrocopy	retro_pabe_112,
Pan troglodytes	ENSPTRG00000019583	1 retrocopy	retro_ptro_67,
Rattus norvegicus	ENSRNOG00000007253	1 retrocopy	retro_rnor_1063,