RetrogeneDB ID:

retro_mmul_745

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:1099214785412:1173..1417(-)
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:ENSMMUG00000012180
Aliases:None
Description:keratinocyte associated protein 2 [Source:HGNC Symbol;Acc:28942]


Retrocopy-Parental alignment summary:






>retro_mmul_745
TTCAAGATTCTGGAGACTCTTGTGTTTGGCAAAGGATCCCAAGCAAAGACTTTCCTGAGATTCTCCTGTTCTTCTGTTGG
CTCTCTTTGCATCTGGCCTCATCCACTGAGTCTGTGTCACCACCTGCTTCATCTTCTCCGTGGTTGGTCTGTGCTACATT
AACAAGATCTCCTCCACTCTGCATCAGGCAGCAGCTCCAGTCCTCACACCAGCCAAGGTCACAGGCAAGAGCAAGAAGAG
ACAT

ORF - retro_mmul_745 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.52 %
Parental protein coverage: 50.62 %
Number of stop codons detected: 1
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalFNNLENLVFGKGFQAKIF-PEILL-CLLLALFASGLIHRVCVTTCFIFSMVGLYYINKISSTLYQAAAPV
F..LE.LVFGKG.QAK.F.PEILL..LLLALFASGLIH.VCVTTCFIFS.VGL.YINKISSTL.QAAAPV
RetrocopyFKILETLVFGKGSQAKTF<PEILL<VLLLALFASGLIH*VCVTTCFIFSVVGLCYINKISSTLHQAAAPV
ParentalLTPAKVTGKSKKRN
LTPAKVTGKSKKR.
RetrocopyLTPAKVTGKSKKRH

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






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 12 .66 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 16 .74 RPM
SRP007412_cerebellum 0 .00 RPM 13 .95 RPM
SRP007412_heart 0 .00 RPM 22 .08 RPM
SRP007412_kidney 0 .00 RPM 37 .91 RPM
SRP007412_liver 0 .00 RPM 55 .77 RPM
SRP007412_testis 0 .00 RPM 84 .02 RPM

ChIP-Seq - click to see more details

Macaca mulatta was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmul_745 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_745 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_745 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 16 parental genes, and 20 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000113361 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 ENSMMUG00000012180 2 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