RetrogeneDB ID:

retro_mdom_1366

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:4:158135566..158135989(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SRP19
Ensembl ID:ENSMODG00000013278
Aliases:None
Description:signal recognition particle 19kDa [Source:HGNC Symbol;Acc:11300]


Retrocopy-Parental alignment summary:






>retro_mdom_1366
ATGGTGTATGCATATCAGTCTCCATTGGACCAGGGAGGTTCATTTGCATTTATCCTACATATTTAAATAACAAGAAGACA
ATTTCTGAGGGAAGATGGTTTCCAATTGGCAAAGCTGTTGAGAATCCAGTAGCTACAGAAATCCAATATGTGTGCCTGGC
AGTTGAACTTAATGTATACATTGAGAAAAATAAAATTTACTCAAAAGAGTGGAATTGTGATCTTCAATATAGGGGCAGAG
TATAATTTCAGCTAAAGCAGGAAGATGACAGCCTATGCCTTGTACAGTTCCTGTCACAAAAGGTCAGTAATATTGTATGC
AGCTGAAATGATGCCTAAGCTAAAAACAAACACACCAGGAACAGGAGTTGGTAAGCAAAGTCTTCAACAAGGAGAGGGAG
GTAAAAAAGGAAAAAGGAAGAAG

ORF - retro_mdom_1366 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.52 %
Parental protein coverage: 98.6 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMAYADRSPADKD-RFICIYPAYLNNKKTIAEGRRIPMDKAVENPTATEIQDVCLAVGLNVHVEKNKMYSR
M.YA..SP.D...RFICIYP.YLNNKKTI.EGR..P..KAVENP.ATEIQ.VCLAV.LNV..EKNK.YS.
RetrocopyMVYAYQSPLDQG<RFICIYPTYLNNKKTISEGRWFPIGKAVENPVATEIQYVCLAVELNVYIEKNKIYSK
ParentalEWNRDLQYRGRVRVQLKQEDGSLCLVQFPSRK-SVMLYAAEMIPKLKTRTQKTGGGDQSLQQGEGGKKGK
EWN.DLQYRGRV..QLKQED.SLCLVQF.S.K.SV.LYAAEM.PKLKT.T..TG.G.QSLQQGEGGKKGK
RetrocopyEWNCDLQYRGRV*FQLKQEDDSLCLVQFLSQK>SVILYAAEMMPKLKTNTPGTGVGKQSLQQGEGGKKGK
ParentalGKK
.KK
RetrocopyRKK

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 0 .00 RPM
SRP007412_cerebellum 0 .00 RPM 0 .00 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .00 RPM 0 .00 RPM
SRP007412_liver 0 .00 RPM 0 .00 RPM
SRP007412_testis 0 .00 RPM 0 .00 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_1366 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1366 was not experimentally validated.

Retrocopy orthology:
Monodelphis domestica 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 23 parental genes, and 50 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000315495 retrocopies
Choloepus hoffmanni ENSCHOG000000134522 retrocopies
Callithrix jacchus ENSCJAG000000165124 retrocopies
Equus caballus ENSECAG000000088951 retrocopy
Erinaceus europaeus ENSEEUG000000072982 retrocopies
Echinops telfairi ENSETEG000000171324 retrocopies
Felis catus ENSFCAG000000258951 retrocopy
Homo sapiens ENSG000001530371 retrocopy
Macropus eugenii ENSMEUG000000125292 retrocopies
Microcebus murinus ENSMICG000000003991 retrocopy
Myotis lucifugus ENSMLUG000000147933 retrocopies
Macaca mulatta ENSMMUG000000003312 retrocopies
Monodelphis domestica ENSMODG00000013278 3 retrocopies
retro_mdom_1366 , retro_mdom_1880, retro_mdom_663,
Mustela putorius furoENSMPUG000000126952 retrocopies
Mus musculus ENSMUSG000000145043 retrocopies
Nomascus leucogenys ENSNLEG000000115711 retrocopy
Oryctolagus cuniculus ENSOCUG000000156393 retrocopies
Otolemur garnettii ENSOGAG000000085791 retrocopy
Ochotona princeps ENSOPRG000000105493 retrocopies
Pongo abelii ENSPPYG000000295841 retrocopy
Pteropus vampyrus ENSPVAG000000048951 retrocopy
Rattus norvegicus ENSRNOG000000202042 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000003482 retrocopies



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