RetrogeneDB ID:

retro_ggor_1153

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:15:36579238..36579650(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HRSP12
Ensembl ID:ENSGGOG00000001185
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1153
ATGTCATCCTTGATCAGAAAGGTGATCAACACTGAGAAAGCCCAAGGGTACACTGGTCCCTTCAGTCAAGCTGCGTTAGT
TGACGGGATCCTTTACATTTCAGGAGAGCTAGGCATGAACCTTTCGAGTGCACAGCTTGTGCCAAGAGTGGGTAACAGAA
GAAGCTAAACAGGCCCTTAAGAACATGGGTGATATTTTGAAAGCTGCAGGCTGTGACTTCACTAATGTGGTAAAAACAAC
TGTTTGGCTAGCTGACACAAATGACTTCAGGGCTGTCAATGTAATCTACAAACAGTATTTTAAGAGTGGTTTTTCTACTA
GAGCTGCTTACCATGTTGCTGCTTTACCCAAAGGAGGCCAGGTTGAAATTGAAGCAGTAGCTGTTCAAGGACCTCTCACA
ACAGCCTGTCTG

ORF - retro_ggor_1153 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.64 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMSSLIRRVISTAKAPGAIGPYSQAVLVDRTIYISGQIGMDPSSGQLV-SGGVAEEAKQALKNMGEILKAA
MSSLIR.VI.T.KA.G..GP.SQA.LVD...YISG..GM..SS.QLV....V.EEAKQALKNMG.ILKAA
RetrocopyMSSLIRKVINTEKAQGYTGPFSQAALVDGILYISGELGMNLSSAQLV>QEWVTEEAKQALKNMGDILKAA
ParentalGCDFTNVVKTTVLLADINDFNTVNEIYKQYFKSNFPARAAYQVAALPKGSRIEIEAVAVQGPLTTASL
GCDFTNVVKTTV.LAD.NDF..VN.IYKQYFKS.F..RAAY.VAALPKG...EIEAVAVQGPLTTA.L
RetrocopyGCDFTNVVKTTVWLADTNDFRAVNVIYKQYFKSGFSTRAAYHVAALPKGGQVEIEAVAVQGPLTTACL

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_prefrontal_cortex 0 .10 RPM 9 .35 RPM
SRP007412_cerebellum 0 .00 RPM 8 .71 RPM
SRP007412_heart 0 .00 RPM 1 .69 RPM
SRP007412_kidney 0 .57 RPM 227 .06 RPM
SRP007412_liver 0 .26 RPM 165 .47 RPM
SRP007412_testis 0 .00 RPM 9 .95 RPM

ChIP-Seq - click to see more details

Gorilla gorilla was not studied using ChIP-Seq data.

EST - click to see more details

Gorilla gorilla was not studied using EST data.

TSS - click to see more details

Gorilla gorilla was not studied using FANTOM5 data.

Lab - click to see more details

retro_ggor_1153 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1153 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1502
Pan troglodytes retro_ptro_1019
Pongo abelii retro_pabe_1253
Parental genes homology:
Parental genes homology involve 28 parental genes, and 89 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000005751 retrocopy
retro_amel_1033,
Bos taurus ENSBTAG000000125955 retrocopies
retro_btau_1068, retro_btau_1145, retro_btau_1328, retro_btau_771, retro_btau_912,
Canis familiaris ENSCAFG000000302501 retrocopy
retro_cfam_668,
Choloepus hoffmanni ENSCHOG000000012788 retrocopies
retro_chof_133, retro_chof_1972, retro_chof_2434, retro_chof_2503, retro_chof_2676, retro_chof_380, retro_chof_515, retro_chof_757,
Callithrix jacchus ENSCJAG000000155602 retrocopies
retro_cjac_1702, retro_cjac_465,
Dasypus novemcinctus ENSDNOG000000251383 retrocopies
retro_dnov_1155, retro_dnov_224, retro_dnov_793,
Dipodomys ordii ENSDORG000000153822 retrocopies
retro_dord_576, retro_dord_713,
Erinaceus europaeus ENSEEUG000000148051 retrocopy
retro_eeur_256,
Felis catus ENSFCAG000000021671 retrocopy
retro_fcat_624,
Homo sapiens ENSG000001325413 retrocopies
retro_hsap_1502, retro_hsap_284, retro_hsap_3022,
Gorilla gorilla ENSGGOG00000001185 1 retrocopy
retro_ggor_1153 ,
Loxodonta africana ENSLAFG000000020781 retrocopy
retro_lafr_437,
Microcebus murinus ENSMICG0000000435613 retrocopies
retro_mmur_1096, retro_mmur_1206, retro_mmur_1323, retro_mmur_209, retro_mmur_222, retro_mmur_364, retro_mmur_533, retro_mmur_589, retro_mmur_597, retro_mmur_603, retro_mmur_79, retro_mmur_870, retro_mmur_97,
Macaca mulatta ENSMMUG000000118252 retrocopies
retro_mmul_558, retro_mmul_88,
Monodelphis domestica ENSMODG000000065751 retrocopy
retro_mdom_319,
Mustela putorius furoENSMPUG000000152531 retrocopy
retro_mputfur_1449,
Mus musculus ENSMUSG000000223231 retrocopy
retro_mmus_3584,
Nomascus leucogenys ENSNLEG000000024853 retrocopies
retro_nleu_1721, retro_nleu_3065, retro_nleu_837,
Ornithorhynchus anatinus ENSOANG000000215321 retrocopy
retro_oana_33,
Otolemur garnettii ENSOGAG000000014653 retrocopies
retro_ogar_2308, retro_ogar_2951, retro_ogar_552,
Pongo abelii ENSPPYG000000187763 retrocopies
retro_pabe_1253, retro_pabe_2504, retro_pabe_387,
Pan troglodytes ENSPTRG000000204573 retrocopies
retro_ptro_1019, retro_ptro_2040, retro_ptro_234,
Sus scrofa ENSSSCG000000060791 retrocopy
retro_sscr_834,
Ictidomys tridecemlineatus ENSSTOG000000114524 retrocopies
retro_itri_1591, retro_itri_192, retro_itri_605, retro_itri_894,
Tupaia belangeri ENSTBEG0000000260210 retrocopies
retro_tbel_1543, retro_tbel_1602, retro_tbel_2450, retro_tbel_2868, retro_tbel_2995, retro_tbel_3589, retro_tbel_421, retro_tbel_621, retro_tbel_888, retro_tbel_953,
Tarsius syrichta ENSTSYG000000030856 retrocopies
retro_tsyr_120, retro_tsyr_1541, retro_tsyr_226, retro_tsyr_373, retro_tsyr_624, retro_tsyr_798,
Tursiops truncatus ENSTTRG000000160665 retrocopies
retro_ttru_1282, retro_ttru_1589, retro_ttru_1626, retro_ttru_369, retro_ttru_909,
Vicugna pacos ENSVPAG000000082773 retrocopies
retro_vpac_30, retro_vpac_358, retro_vpac_89,


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