RetrogeneDB ID:

retro_meug_1431

Retrocopy
location
Organism:Wallaby (Macropus eugenii)
Coordinates:Scaffold40157:3344..4249(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMEUG00000010847
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:GHITM
Ensembl ID:ENSMEUG00000009861
Aliases:None
Description:growth hormone inducible transmembrane protein [Source:HGNC Symbol;Acc:17281]


Retrocopy-Parental alignment summary:






>retro_meug_1431
GGCTATGCCACCAAATCAAGAATTGGGGTCCGATGTGGAAAAATTGACCAAGAAATTAAGGAAGTAGCATTTGAACCATC
AGCAGAAAGAATATTTAAAATTGATCAGATGGGAAAATGGTTTGTTGCTGGAGGAGCTGCTGTTGGACTTGGAGCACTCT
GCTTCCATGGCTTGGGAATGTCAAATGAAATTGGGGCTGTTGAAAAAGCAGTAATTGGCCACAGTATGTGAAGGATGGAA
TTCATGCCACCTATATATATTTCGCAGGGAGTGTTGGTTTAACAGCATTGTCTGCCTTAGCAGTTAGCCGATCACCTGCT
TTAATGACCTTTATGATGAAAGACTCTTGGTTGACAATCGGAGAGACTTTTGTAGCTATGATTGGAGCTGGAATGTTGGT
TCGGTCAATATCATACGAGTGGAGTCCAGGCCTAAAACATCTTCCTTGGATGTTCCATTCTGGTGTCATGGGTACAGTAG
TGGCCCCTCTGACTTTGTTGGATGACCCTCTGATCCTCAAAGCTTTCTGGTATACAGCAGGCATTGTGGGTGGACTGTCT
ACTGTAGCCATGTGTGCTCCAAGTGAAAAATTTCTAAACATGGGAGCACTGCTGGGAGTGGGACTGGGTGTTGTTTTTGT
TTCTTCTTGGGGATCTATGTTTCTACCATCTACCACTGCACTTGGTGCTGGTCTTTATTCTGTGGCAATGTATGGTGGAT
TAGTTCTTTTTAGCATGTTCCTTCTATATGATACCCCCAAAGTCATCAAGCATGCAGAAATAATATCCATGTAAGGCACA
GAAAGATATGACCCCATTAACTCCATGATGGGAATCTACATGGATACACTAAATATGTTTATGTGAGTAGCCACCATGTT
AGCAACTGGGAGCAACAGGAAGAAA

ORF - retro_meug_1431 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.13 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 2
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalGYATKSRIGVRRGKTGQELKEAAFEPSAERIFKIDQMGRWFVAGGAAVGLGALCFYGLGMSNEIGAIEKA
GYATKSRIGVR.GK..QE.KE.AFEPSAERIFKIDQMG.WFVAGGAAVGLGALCF.GLGMSNEIGA.EKA
RetrocopyGYATKSRIGVRCGKIDQEIKEVAFEPSAERIFKIDQMGKWFVAGGAAVGLGALCFHGLGMSNEIGAVEKA
ParentalVI-WPQYVKDRIHATYMYFAGSVGLTALSALAVSRSPALMTFMMKGSWLXXXXXXXXXXXXXMLVRSISY
VI.WPQYVKD.IHATY.YFAGSVGLTALSALAVSRSPALMTFMMK.SWL.............MLVRSISY
RetrocopyVI<WPQYVKDGIHATYIYFAGSVGLTALSALAVSRSPALMTFMMKDSWLTIGETFVAMIGAGMLVRSISY
ParentalERSPGLKHLAWMFHSGVMGTVVAPLTLLGGPLILKAFWYTAGIVGGLSTVAMCAPSEKFLNMGAPLGVGL
E.SPGLKHL.WMFHSGVMGTVVAPLTLL..PLILKAFWYTAGIVGGLSTVAMCAPSEKFLNMGA.LGVGL
RetrocopyEWSPGLKHLPWMFHSGVMGTVVAPLTLLDDPLILKAFWYTAGIVGGLSTVAMCAPSEKFLNMGALLGVGL
ParentalGVVFVSSLGSMFLPPTTALGAGLYSVAMYGGLVLFSMFLLYDTQKVIKRAEIMPMYGTERYDPINSMMGI
GVVFVSS.GSMFLP.TTALGAGLYSVAMYGGLVLFSMFLLYDT.KVIK.AEI..M.GTERYDPINSMMGI
RetrocopyGVVFVSSWGSMFLPSTTALGAGLYSVAMYGGLVLFSMFLLYDTPKVIKHAEIISM*GTERYDPINSMMGI
ParentalYMDTLNIFMRVATMLATGSNRKK
YMDTLN.FM.VATMLATGSNRKK
RetrocopyYMDTLNMFM*VATMLATGSNRKK

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






RNA-Seq - click to see more details

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Macropus eugenii was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_meug_1431 retrocopy.

TSS - click to see more details

Macropus eugenii was not studied using FANTOM5 data.

Lab - click to see more details

retro_meug_1431 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 18 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000097531 retrocopy
retro_amel_336,
Bos taurus ENSBTAG000000328292 retrocopies
retro_btau_1689, retro_btau_779,
Choloepus hoffmanni ENSCHOG000000015761 retrocopy
retro_chof_5,
Cavia porcellus ENSCPOG000000064321 retrocopy
retro_cpor_1436,
Dasypus novemcinctus ENSDNOG000000188805 retrocopies
retro_dnov_2426, retro_dnov_2514, retro_dnov_2524, retro_dnov_708, retro_dnov_812,
Dipodomys ordii ENSDORG000000011091 retrocopy
retro_dord_184,
Echinops telfairi ENSETEG000000017961 retrocopy
retro_etel_68,
Loxodonta africana ENSLAFG000000096461 retrocopy
retro_lafr_388,
Macropus eugenii ENSMEUG00000009861 3 retrocopies
retro_meug_1431 , retro_meug_1806, retro_meug_798,
Microcebus murinus ENSMICG000000116211 retrocopy
retro_mmur_692,
Monodelphis domestica ENSMODG000000016933 retrocopies
retro_mdom_1008, retro_mdom_407, retro_mdom_886,
Oryctolagus cuniculus ENSOCUG000000060931 retrocopy
retro_ocun_260,
Otolemur garnettii ENSOGAG000000121201 retrocopy
retro_ogar_1287,
Rattus norvegicus ENSRNOG000000139611 retrocopy
retro_rnor_2461,
Sus scrofa ENSSSCG000000103451 retrocopy
retro_sscr_1102,
Tupaia belangeri ENSTBEG000000163652 retrocopies
retro_tbel_1601, retro_tbel_2819,
Tarsius syrichta ENSTSYG000000063671 retrocopy
retro_tsyr_4,
Drosophila melanogaster FBgn00302631 retrocopy
retro_dmel_61,


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