RetrogeneDB ID:

retro_amel_1789

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL194336.1:88613..89018(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KRTCAP2
Ensembl ID:ENSAMEG00000011336
Aliases:None
Description:keratinocyte associated protein 2 [Source:HGNC Symbol;Acc:28942]


Retrocopy-Parental alignment summary:






>retro_amel_1789
GCCATGGGTATCGGCACCTGGCTGCACTCTCCTCCCTGCTGTCCCTGCTGCTGTTTCTCGGGATGCACATGTGTAGCCTC
CACCTGGCCTGCACCCAGTGGCTCACCATCAAGAGTGGGCCTGCTGGGCTCCAGCCTTTTAGTCTTCTCTCTCACTGCCA
TCAGTAACCTGGAGAATGCTGTCTTTGGCAAAGGATTCCAAACAAAGATCTTCCCTGAGATTCTTCTCTGTCTCCTGTTG
GCTTTCTTTGCATCTGGCCTCAAACACCAAGTCTGCATTACCACCTGCTTCACCTTTTCAATGGCGGGCCTCTACTACGT
CAACAAGATCTCCTCCAGTCTGTACCAGACAGCAATTCCATTCCTCACACCACCCAAAATCACAGGGAGGGGCAAATAGA
GAAAC

ORF - retro_amel_1789 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.45 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 1
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalAVGTGTSL-ALSSLLSLLLFAGMQMYSRQLASTEWLTIQGG-LLGSGLFVFSLTAFNNLENLVFGKGFQA
A.G.GT.L.ALSSLLSLLLF.GM.M.S..LA.T.WLTI..G.LLGS.L.VFSLTA..NLEN.VFGKGFQ.
RetrocopyAMGIGTWL<ALSSLLSLLLFLGMHMCSLHLACTQWLTIKSG>LLGSSLLVFSLTAISNLENAVFGKGFQT
ParentalKIFPEILLCLLLALFASGLIHRVCVTTCFLFSMVGLYYINKISSALYQAAAPVLTPAKVTGKGKKRN
KIFPEILLCLLLA.FASGL.H.VC.TTCF.FSM.GLYY.NKISS.LYQ.A.P.LTP.K.TG.GK.RN
RetrocopyKIFPEILLCLLLAFFASGLKHQVCITTCFTFSMAGLYYVNKISSSLYQTAIPFLTPPKITGRGK*RN

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






RNA-Seq - click to see more details

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_amel_1789 retrocopy.

TSS - click to see more details

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab - click to see more details

retro_amel_1789 was not experimentally validated.

Retrocopy orthology:
Ailuropoda melanoleuca 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 16 parental genes, and 20 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000011336 1 retrocopy
retro_amel_1789 ,
Canis familiaris ENSCAFG000000170551 retrocopy
retro_cfam_1487,
Callithrix jacchus ENSCJAG000000090171 retrocopy
retro_cjac_1289,
Felis catus ENSFCAG000000250853 retrocopies
retro_fcat_1496, retro_fcat_477, retro_fcat_576,
Homo sapiens ENSG000001634631 retrocopy
retro_hsap_2100,
Gorilla gorilla ENSGGOG000000093031 retrocopy
retro_ggor_1635,
Macaca mulatta ENSMMUG000000121802 retrocopies
retro_mmul_745, retro_mmul_987,
Mustela putorius furoENSMPUG000000056471 retrocopy
retro_mputfur_1653,
Nomascus leucogenys ENSNLEG000000118641 retrocopy
retro_nleu_1306,
Oryctolagus cuniculus ENSOCUG000000003471 retrocopy
retro_ocun_157,
Otolemur garnettii ENSOGAG000000302711 retrocopy
retro_ogar_1306,
Pongo abelii ENSPPYG000000007561 retrocopy
retro_pabe_1999,
Pan troglodytes ENSPTRG000000014101 retrocopy
retro_ptro_1541,
Rattus norvegicus ENSRNOG000000205421 retrocopy
retro_rnor_2128,
Ictidomys tridecemlineatus ENSSTOG000000088291 retrocopy
retro_itri_1127,
Tarsius syrichta ENSTSYG000000132282 retrocopies
retro_tsyr_1096, retro_tsyr_531,


Copyright © RetrogeneDB 2014-2017