RetrogeneDB ID:

retro_meug_2141

Retrocopy
location
Organism:Wallaby (Macropus eugenii)
Coordinates:Scaffold93821:806..1422(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GAPDH
Ensembl ID:ENSMEUG00000015273
Aliases:None
Description:glyceraldehyde-3-phosphate dehydrogenase [Source:HGNC Symbol;Acc:4141]


Retrocopy-Parental alignment summary:






>retro_meug_2141
GTGAAGTTTTCCATCAATGAATTTGGCCATATAGGAGCCTGGTGACCAAGGCTTCATTCATTTCAGGCAGAATGGATGAT
GGGACCATCATTGACCCCTTTGTTTACCCCAGCTACCTGGCTTATATACTCCAATATGATTCCATCCGTGGCAAGTTCAG
GGACATTGTCAAAGCTAAGAATAGAAAACTGGTGATCAATGGAAAAGGCTTCACTATATTCCAGGAGCATGATCCCATCA
ATATTAAATATATAGATGCTGTAGCTGAATGTGTAGTAGAGTTCCTTGGTATCTTTACCATCATGGAAAAGGCCAGGGCT
CACATGAAGGGTAGAGCCAAGCATGTCATCATCTCTGTCCCTTTTGCTGATGTTTCTCTGTTTGTGATGGGAATGTACCA
TTAAGACTAAGACAATTCCTTTAACATTGCCTTTAAGATGCCTCCCATGCTATCAAATGCTTGGATCCCCCTAGCCAAGG
TCATTCCTGACAACTTTGGCATCGTGAAAGGACTTATGACCATAATATATGCATTACTGCTTCCCAGAAAACAATAGATG
ATCCCTCTGACAAGTTATGACATGATGGGCATTGAAATGCCCAAAATATCATCCCT

ORF - retro_meug_2141 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 58.17 %
Parental protein coverage: 61.19 %
Number of stop codons detected: 4
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalVKVGINGFGRIGR-LVTRAAFTSGHVDVVAINDPFIDLNYMVYMFEYDSTHGKFKGTVKAENGKLVINGK
VK..IN.FG.IG..LVT.A.F.SG..D...I.DPF....Y..Y...YDS..GKF...VKA.N.KLVINGK
RetrocopyVKFSINEFGHIGA<LVTKASFISGRMDDGTIIDPFVYPSYLAYILQYDSIRGKFRDIVKAKNRKLVINGK
ParentalAITIFQERDPTNIKWGDAGAEYVVESTGVFTTMEKAGAHLKGGAKRVIISAPSADAPMFVMGVNHEKYDN
..TIFQE.DP.NIK..DA.AE.VVE..G.FT.MEKA.AH.KG.AK.VIIS.P.AD...FVMG..H...DN
RetrocopyGFTIFQEHDPINIKYIDAVAECVVEFLGIFTIMEKARAHMKGRAKHVIISVPFADVSLFVMGMYH*D*DN
ParentalSLKIV-SNASCTTNCLAPLAKVIHDNFGIVERLMTTVHA-ITATQKTVDGPSGKLWRDGRGAAQNIIP
S..I.........N...PLAKVI.DNFGIV..LMT...A.ITA.QKT.D.PS.KL..DG...AQNIIP
RetrocopySFNIAFKMPPMLSNAWIPLAKVIPDNFGIVKGLMTIIYA<ITASQKTIDDPSDKL*HDGH*NAQNIIP

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






Macropus eugenii was not studied using RNA-Seq expression data.
Macropus eugenii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_meug_2141 retrocopy.
Macropus eugenii was not studied using FANTOM5 data.
retro_meug_2141 was not experimentally validated.

Retrocopy orthology:
Macropus eugenii 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 22 parental genes, and 554 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066755 retrocopies
Ailuropoda melanoleuca ENSAMEG0000001432935 retrocopies
Canis familiaris ENSCAFG000000150774 retrocopies
Callithrix jacchus ENSCJAG000000082341 retrocopy
Cavia porcellus ENSCPOG000000263501 retrocopy
Erinaceus europaeus ENSEEUG000000114443 retrocopies
Homo sapiens ENSG0000011164042 retrocopies
Gorilla gorilla ENSGGOG0000000955330 retrocopies
Loxodonta africana ENSLAFG000000027803 retrocopies
Macropus eugenii ENSMEUG00000015273 67 retrocopies
Microcebus murinus ENSMICG0000000654616 retrocopies
Macaca mulatta ENSMMUG0000001867933 retrocopies
Monodelphis domestica ENSMODG0000001806641 retrocopies
Mustela putorius furoENSMPUG0000001689128 retrocopies
Mus musculus ENSMUSG00000057666109 retrocopies
retro_mmus_1029, retro_mmus_1082, retro_mmus_1136, retro_mmus_1193, retro_mmus_1249, retro_mmus_1319, retro_mmus_1328, retro_mmus_136, retro_mmus_1365, retro_mmus_1371, retro_mmus_1467, retro_mmus_1474, retro_mmus_1480, retro_mmus_1615, retro_mmus_1692, retro_mmus_1721, retro_mmus_1728, retro_mmus_1886, retro_mmus_1922, retro_mmus_1957, retro_mmus_1983, retro_mmus_1985, retro_mmus_2009, retro_mmus_2020, retro_mmus_2030, retro_mmus_2100, retro_mmus_211, retro_mmus_2119, retro_mmus_2122, retro_mmus_2148, retro_mmus_2158, retro_mmus_2175, retro_mmus_2206, retro_mmus_2216, retro_mmus_2248, retro_mmus_2298, retro_mmus_2370, retro_mmus_2371, retro_mmus_2389, retro_mmus_2463, retro_mmus_2477, retro_mmus_2481, retro_mmus_2512, retro_mmus_2556, retro_mmus_2587, retro_mmus_2623, retro_mmus_2626, retro_mmus_2647, retro_mmus_2681, retro_mmus_2755, retro_mmus_2761, retro_mmus_2764, retro_mmus_2848, retro_mmus_2872, retro_mmus_2911, retro_mmus_2912, retro_mmus_2913, retro_mmus_2914, retro_mmus_2915, retro_mmus_2920, retro_mmus_2932, retro_mmus_2943, retro_mmus_300, retro_mmus_3036, retro_mmus_3064, retro_mmus_3120, retro_mmus_3137, retro_mmus_3140, retro_mmus_3148, retro_mmus_3151, retro_mmus_3188, retro_mmus_3193, retro_mmus_3197, retro_mmus_3216, retro_mmus_3228, retro_mmus_3306, retro_mmus_3335, retro_mmus_3336, retro_mmus_3357, retro_mmus_3377, retro_mmus_3445, retro_mmus_3514, retro_mmus_3575, retro_mmus_3650, retro_mmus_3658, retro_mmus_3693, retro_mmus_3716, retro_mmus_3814, retro_mmus_416, retro_mmus_437, retro_mmus_48, retro_mmus_553, retro_mmus_608, retro_mmus_619, retro_mmus_628, retro_mmus_635, retro_mmus_698, retro_mmus_745, retro_mmus_765, retro_mmus_766, retro_mmus_787, retro_mmus_811, retro_mmus_893, retro_mmus_914, retro_mmus_921, retro_mmus_946, retro_mmus_952, retro_mmus_976, retro_mmus_996,
Nomascus leucogenys ENSNLEG0000000382544 retrocopies
Pongo abelii ENSPPYG0000000418938 retrocopies
Pan troglodytes ENSPTRG0000000457743 retrocopies
Rattus norvegicus ENSRNOG000000186304 retrocopies
Rattus norvegicus ENSRNOG000000306382 retrocopies
Sarcophilus harrisii ENSSHAG000000149534 retrocopies
Xenopus tropicalis ENSXETG000000339751 retrocopy



Copyright © RetrogeneDB 2014-2017