RetrogeneDB ID:

retro_nleu_1059

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397279.1:35362937..35363818(-)
Located in intron of:ENSNLEG00000017670
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ACTG1
Ensembl ID:ENSNLEG00000013385
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1059
CTCACCATAGATGATGATATTGCTACGCCCGTCGTTGACAACGGTTCCGGCATGTGCAAGGCTGGCTTCGCAGGCGACGA
TGACCCCTGGGCCATCTTCCCCTTCATCGTGTGGCACCCCAAGCACCCGGCATGATGGTGGGCATGGGTCAGAAGGACTC
CCATGTGGGTGACGAGGCCTAGAGGAAGAGAGGCATCCTGACCCTGAAGTGCCCCATCGAGCATGGCATCGTTACCAACT
GGGACAACATGGAGAAGATCTGGCACCACACCTTCTACAAGGAGCTGTGTGTGGCTCCCGAGGAGCACCCCATGCTGCTG
ACCGAGGCCCCCCTGAACTCTAAGGCCAGCCGCGAGAAGATGACCCAGATCATGTTTGAGACCTTCAACACCCCAGCCAT
GTACATGGCCATCCAGCCCGTGCTGTCCCTGTACTTCTCTGGCTGTACCACTGGTATCGTGATGGACTCTGGTGACGAGG
TCACCCACAGTGTGCCCATCTACGAGGGGTATGCCATCCCCCACGCCATCCTGCATCTGGACCTGGCTGGCCAGGCCCTG
ACTGACTACCTCATGAAGATCCTTACCGAGCACGGCTACAGCTTCCCCACCACGGCTGAGTGGGATATCGTGCGTGACAT
CAAGGAGAAGCTGTGCTATGCCGCTCTGGCCTTCGAGCAGGGGATGGCCATGGCGGCCTCCAGCTCCTCCCTGGAGAAGA
GCTACGAGCTGCCTGACGGCCAGGTCATCACCATCGGCAACGAGCAGTTCTGCTGTCCTGAGGCACTCTTCTAGATTTCC
TTCCTGGGCATGGAATCCTGTGGCATCCATGAAACTACCTTCAACTCCATTATGAAGTGTGACGTGGACATCCACAAAGA
C

ORF - retro_nleu_1059 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.37 %
Parental protein coverage: 77.78 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVAMEEEIAALVIDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQ-GVMVGMGQKDSYVGDEAQSKRGILTL
......IA..V.DNGSGMCKAGFAGDD.P.A.FP.IV..P.H..G.MVGMGQKDS.VGDEA..KRGILTL
RetrocopyLTIDDDIATPVVDNGSGMCKAGFAGDDDPWAIFPFIVWHPKHP<GMMVGMGQKDSHVGDEA*RKRGILTL
ParentalKYPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQ
K.PIEHGIVTNWD.MEKIWHHTFY.EL.VAPEEHP.LLTEAPLN.KA.REKMTQIMFETFNTPAMY.AIQ
RetrocopyKCPIEHGIVTNWDNMEKIWHHTFYKELCVAPEEHPMLLTEAPLNSKASREKMTQIMFETFNTPAMYMAIQ
ParentalAVLSLYASGRTTGIVMDSGDGVTHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAERE
.VLSLY.SG.TTGIVMDSGD.VTH.VPIYEGYA.PHAIL.LDLAG..LTDYLMKILTE.GYSF.TTAE..
RetrocopyPVLSLYFSGCTTGIVMDSGDEVTHSVPIYEGYAIPHAILHLDLAGQALTDYLMKILTEHGYSFPTTAEWD
ParentalIVRDIKEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPEALFQPSFLGMESCGIHET
IVRDIKEKLCY.AL.FEQ.MA.AASSSSLEKSYELPDGQVITIGNE.F.CPEALF..SFLGMESCGIHET
RetrocopyIVRDIKEKLCYAALAFEQGMAMAASSSSLEKSYELPDGQVITIGNEQFCCPEALF*ISFLGMESCGIHET
ParentalTFNSIMKCDVDIRKD
TFNSIMKCDVDI.KD
RetrocopyTFNSIMKCDVDIHKD

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






Nomascus leucogenys was not studied using RNA-Seq expression data.
Nomascus leucogenys was not studied using ChIP-Seq data.
Nomascus leucogenys was not studied using EST data.
Nomascus leucogenys was not studied using FANTOM5 data.
retro_nleu_1059 was not experimentally validated.

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.

Parental genes homology:
Parental genes homology involve 19 parental genes, and 102 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000152383 retrocopies
Bos taurus ENSBTAG000000061892 retrocopies
Callithrix jacchus ENSCJAG000000028853 retrocopies
Gallus gallus ENSGALG000000287491 retrocopy
Loxodonta africana ENSLAFG000000091671 retrocopy
Macropus eugenii ENSMEUG0000001624757 retrocopies
Microcebus murinus ENSMICG000000148633 retrocopies
Nomascus leucogenys ENSNLEG000000122331 retrocopy
Nomascus leucogenys ENSNLEG00000013385 15 retrocopies
Nomascus leucogenys ENSNLEG000000143471 retrocopy
Nomascus leucogenys ENSNLEG000000151571 retrocopy
Nomascus leucogenys ENSNLEG000000155063 retrocopies
Oryctolagus cuniculus ENSOCUG000000058671 retrocopy
Otolemur garnettii ENSOGAG000000080403 retrocopies
Petromyzon marinus ENSPMAG000000041611 retrocopy
Pelodiscus sinensis ENSPSIG000000021022 retrocopies
Rattus norvegicus ENSRNOG000000367011 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000068682 retrocopies
Xenopus tropicalis ENSXETG000000251161 retrocopy



Copyright © RetrogeneDB 2014-2017