RetrogeneDB ID:

retro_mmul_1421

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:2:21609817..21610248(+)
Located in intron of:ENSMMUG00000011363
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM136A
Ensembl ID:ENSMMUG00000007962
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mmul_1421
GGGCAGCACAGGGTCACCATGGCAGAGCTACAGCAGCTGCAGGTGCAGGAGGTGGCAGACTCCATGGTGAAGAGTCTGGA
GAAAGAGAACATTCAGAAAATGCAAGGTCTCATGTTTCGGTGCAGCACCAGCTGTTGTGAAGACAGCCAGGCCTCCCTGC
AGCAGGTGCACCAGTGCATCAAGCGCTGCCATGTGCCTCTGGCTCAAGCCCAGGCTTTGGTCATCAGTGAGTTGGAGAAG
TTCAAGGACCGCCTGGCCCGGTGCACCATGCAATGCAATAACACATCCAAAGATTCAATAGATGCAGGAGTAAGGAGCTT
CAGGTGAAGCAGCAGCTAGACGGTTGTGTGACCAAGTGTGTGGATGACCACATGCACCTCATCCCAACTACGACCAAGAA
GATGAAGGAAGCTCTCTTAGCCATTGGGAAA

ORF - retro_mmul_1421 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.52 %
Parental protein coverage: 99.31 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalGQRRVAMAELQQLRVQEAVDSMVKSLERENIRKMQGLMFRCSASCCEDSQASMKQVHQCIERCHVPLAQA
GQ.RV.MAELQQL.VQE..DSMVKSLE.ENI.KMQGLMFRCS.SCCEDSQAS..QVHQCI.RCHVPLAQA
RetrocopyGQHRVTMAELQQLQVQEVADSMVKSLEKENIQKMQGLMFRCSTSCCEDSQASLQQVHQCIKRCHVPLAQA
ParentalQALVTSELEKFQDRLARCTMHCNDKAKDSIDAG-SKELQVKQQLDSCVTKCVDDHMHLIPTMTKKMKEAL
QALV.SELEKF.DRLARCTM.CN...KDSIDAG.SKELQVKQQLD.CVTKCVDDHMHLIPT.TKKMKEAL
RetrocopyQALVISELEKFKDRLARCTMQCNNTSKDSIDAG<SKELQVKQQLDGCVTKCVDDHMHLIPTTTKKMKEAL
ParentalLSIGK
L.IGK
RetrocopyLAIGK

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






(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 3 .81 RPM
SRP007412_brain_prefrontal_cortex 0 .08 RPM 6 .27 RPM
SRP007412_cerebellum 0 .06 RPM 2 .39 RPM
SRP007412_heart 0 .00 RPM 2 .12 RPM
SRP007412_kidney 0 .00 RPM 1 .76 RPM
SRP007412_liver 0 .00 RPM 2 .02 RPM
SRP007412_testis 0 .04 RPM 0 .98 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1421 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1421 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1421 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2683
Pan troglodytes retro_ptro_1809
Gorilla gorilla retro_ggor_8
Pongo abelii retro_pabe_2297

Parental genes homology:
Parental genes homology involve 22 parental genes, and 83 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000159921 retrocopy
Bos taurus ENSBTAG000000086742 retrocopies
Canis familiaris ENSCAFG000000033532 retrocopies
Cavia porcellus ENSCPOG000000091171 retrocopy
Dasypus novemcinctus ENSDNOG000000194477 retrocopies
Dipodomys ordii ENSDORG000000065294 retrocopies
Felis catus ENSFCAG000000081191 retrocopy
Homo sapiens ENSG000000351415 retrocopies
Gorilla gorilla ENSGGOG000000232476 retrocopies
Loxodonta africana ENSLAFG000000023041 retrocopy
Macropus eugenii ENSMEUG000000157918 retrocopies
Macaca mulatta ENSMMUG00000007962 5 retrocopies
Monodelphis domestica ENSMODG000000115331 retrocopy
Mus musculus ENSMUSG000000574972 retrocopies
Otolemur garnettii ENSOGAG000000282654 retrocopies
Pongo abelii ENSPPYG000000123236 retrocopies
Pan troglodytes ENSPTRG000000120306 retrocopies
Rattus norvegicus ENSRNOG000000162731 retrocopy
Sus scrofa ENSSSCG000000264466 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000083431 retrocopy
Tupaia belangeri ENSTBEG000000174188 retrocopies
Tursiops truncatus ENSTTRG000000011985 retrocopies



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