RetrogeneDB ID:

retro_mdom_1792

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:7:122434271..122434699(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AK2
Ensembl ID:ENSMODG00000017363
Aliases:None
Description:adenylate kinase 2 [Source:HGNC Symbol;Acc:362]


Retrocopy-Parental alignment summary:






>retro_mdom_1792
GGCTTCCTTTAGACCGTGAAACAGGCAAAAATGCTGATGAACTCATGAACAAGAGGAATCAAAAGCTAGATTCAGTCATT
GAATTCAGCATTGGCCACTCTTTACTCATCTAGAAAATCCCAGGGAGGTTGATCCATCCTGCAAGTGGCCAAGCCTAACC
ATGAGGAGTTCAACTCCACTAAGCAGCATGTGAAGGATGATGTGACTGGAGAGCCTTTGATTCACCATTCAGATGATAAT
GAAACTGCTTTGAAAACCCCCTGAAGGCACATCACTCATGGACCTCAGACCACCCCCCTAGTGAAGTACTAGAGTAAGGG
TAGGATCCATTCCACCATGGATGCTTCTCAGTTCCCAGATGTGGTATTTGCATGTATCCTGGCTGCCTTCTCCGAAGCAA
CATGTGGGCTTCTGAGAAGCAGAAAATG

ORF - retro_mdom_1792 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.97 %
Parental protein coverage: 58.02 %
Number of stop codons detected: 4
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalGFPRTVKQAEML-DELMDKRNEKLDSVIEFSIADSLLIRRITGRLIHPASGRS-YHEEFNPPKQHMKDDV
GF..TVKQA.ML.DELM.KRN.KLDSVIEFSI..SLLI..I.GRLIHPASG....HEEFN..KQH.KDDV
RetrocopyGFL*TVKQAKML<DELMNKRNQKLDSVIEFSIGHSLLI*KIPGRLIHPASGQA>NHEEFNSTKQHVKDDV
ParentalTGEPLIRRSDDNETALKT--RLKAYHSQTTPLVKYYSKRGIHSAVDASQSPDVVFAYILAAFSKATCG-A
TGEPLI..SDDNETALKT..R......QTTPLVKY.SK..IHS..DASQ.PDVVFA.ILAAFS.ATCG.A
RetrocopyTGEPLIHHSDDNETALKTP*RHITHGPQTTPLVKY*SKGRIHSTMDASQFPDVVFACILAAFSEATCG<A
ParentalSEKQSM
SEKQ.M
RetrocopySEKQKM

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 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

ChIP-Seq - click to see more details

Monodelphis domestica was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mdom_1792 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_1792 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 21 parental genes, and 30 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000176052 retrocopies
retro_btau_1146, retro_btau_1168,
Canis familiaris ENSCAFG000000103901 retrocopy
retro_cfam_1622,
Callithrix jacchus ENSCJAG000000011051 retrocopy
retro_cjac_509,
Dasypus novemcinctus ENSDNOG000000141134 retrocopies
retro_dnov_1077, retro_dnov_2052, retro_dnov_2690, retro_dnov_588,
Echinops telfairi ENSETEG000000023332 retrocopies
retro_etel_1466, retro_etel_309,
Homo sapiens ENSG000000044551 retrocopy
retro_hsap_395,
Gorilla gorilla ENSGGOG000000000691 retrocopy
retro_ggor_395,
Myotis lucifugus ENSMLUG000000007931 retrocopy
retro_mluc_1463,
Macaca mulatta ENSMMUG000000062841 retrocopy
retro_mmul_1326,
Monodelphis domestica ENSMODG00000017363 1 retrocopy
retro_mdom_1792 ,
Nomascus leucogenys ENSNLEG000000031521 retrocopy
retro_nleu_1313,
Oryctolagus cuniculus ENSOCUG000000018322 retrocopies
retro_ocun_1280, retro_ocun_445,
Otolemur garnettii ENSOGAG000000008181 retrocopy
retro_ogar_2760,
Ochotona princeps ENSOPRG000000050231 retrocopy
retro_opri_822,
Pongo abelii ENSPPYG000000015791 retrocopy
retro_pabe_1965,
Pan troglodytes ENSPTRG000000004991 retrocopy
retro_ptro_1587,
Rattus norvegicus ENSRNOG000000001223 retrocopies
retro_rnor_1965, retro_rnor_2315, retro_rnor_974,
Sorex araneus ENSSARG000000002021 retrocopy
retro_sara_556,
Sus scrofa ENSSSCG000000243551 retrocopy
retro_sscr_714,
Ictidomys tridecemlineatus ENSSTOG000000160421 retrocopy
retro_itri_595,
Tursiops truncatus ENSTTRG000000089792 retrocopies
retro_ttru_1579, retro_ttru_978,


Copyright © RetrogeneDB 2014-2017