RetrogeneDB ID:

retro_amel_533

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL192489.1:1909342..1909588(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSAMEG00000002493
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_amel_533
ATGCTCCCCTAGGTCCTTGGTTAGGCCAAGAAAGCACTCAAGCTTGATTTCTCTCTTCATATTTATTGGAGCTGGAGTTA
CTGGAGCAGCAGTGTATGTCTTGTATCTGGCATTGTCCGATCCAGATATCTGTTGGGATGAAGAGAGTAACCCAGAACCC
AGAATAAAGTGCGTCCTAATGATCAATGCAAGTTCTACTCAGTGAATGTAGATTACAGCAAACTGAAGAAAGAGGGCTCA
GACTTC

ORF - retro_amel_533 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.05 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMLRQIIGQAKK-HPSLIPLFVFIGAGGTGAALYVLRLALFNPDVSWDRKNNPEP-WNKLGPNEQYKFYSV
ML....G.AKK.H.SLI.LF.FIGAG.TGAA.YVL.LAL..PD..WD...NPEP..NK..PN.Q.KFYSV
RetrocopyMLP*VLG*AKK>HSSLISLFIFIGAGVTGAAVYVLYLALSDPDICWDEESNPEP<QNKVRPNDQCKFYSV
ParentalNVDYSKLKKEGPDF
NVDYSKLKKEG.DF
RetrocopyNVDYSKLKKEGSDF

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






RNA-Seq - click to see more details

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_amel_533 retrocopy.

TSS - click to see more details

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab - click to see more details

retro_amel_533 was not experimentally validated.

Retrocopy orthology:
Ailuropoda melanoleuca 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 28 parental genes, and 193 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000002493 10 retrocopies
retro_amel_1356, retro_amel_1633, retro_amel_18, retro_amel_1800, retro_amel_1866, retro_amel_533 , retro_amel_608, retro_amel_638, retro_amel_845, retro_amel_955,
Bos taurus ENSBTAG000000111457 retrocopies
retro_btau_1075, retro_btau_1155, retro_btau_1375, retro_btau_1454, retro_btau_1710, retro_btau_645, retro_btau_800,
Choloepus hoffmanni ENSCHOG000000123301 retrocopy
retro_chof_2667,
Callithrix jacchus ENSCJAG000000007483 retrocopies
retro_cjac_3291, retro_cjac_36, retro_cjac_90,
Dasypus novemcinctus ENSDNOG0000001121712 retrocopies
retro_dnov_1874, retro_dnov_1921, retro_dnov_2015, retro_dnov_2258, retro_dnov_2566, retro_dnov_2567, retro_dnov_2641, retro_dnov_349, retro_dnov_506, retro_dnov_725, retro_dnov_744, retro_dnov_764,
Equus caballus ENSECAG000000269871 retrocopy
retro_ecab_370,
Felis catus ENSFCAG000000247904 retrocopies
retro_fcat_261, retro_fcat_449, retro_fcat_459, retro_fcat_905,
Homo sapiens ENSG0000018904318 retrocopies
retro_hsap_1459, retro_hsap_200, retro_hsap_2374, retro_hsap_2386, retro_hsap_259, retro_hsap_2685, retro_hsap_2726, retro_hsap_285, retro_hsap_3241, retro_hsap_4067, retro_hsap_4188, retro_hsap_4292, retro_hsap_4699, retro_hsap_4700, retro_hsap_4750, retro_hsap_4856, retro_hsap_650, retro_hsap_877,
Gorilla gorilla ENSGGOG000000014373 retrocopies
retro_ggor_249, retro_ggor_30, retro_ggor_567,
Microcebus murinus ENSMICG000000139995 retrocopies
retro_mmur_1225, retro_mmur_1314, retro_mmur_133, retro_mmur_341, retro_mmur_696,
Myotis lucifugus ENSMLUG000000064706 retrocopies
retro_mluc_1778, retro_mluc_1821, retro_mluc_329, retro_mluc_450, retro_mluc_517, retro_mluc_849,
Macaca mulatta ENSMMUG000000208942 retrocopies
retro_mmul_272, retro_mmul_274,
Monodelphis domestica ENSMODG000000141072 retrocopies
retro_mdom_1095, retro_mdom_1593,
Mustela putorius furoENSMPUG000000141528 retrocopies
retro_mputfur_1127, retro_mputfur_1600, retro_mputfur_416, retro_mputfur_696, retro_mputfur_711, retro_mputfur_790, retro_mputfur_827, retro_mputfur_880,
Mus musculus ENSMUSG000000296324 retrocopies
retro_mmus_2172, retro_mmus_3219, retro_mmus_3412, retro_mmus_3620,
Oryctolagus cuniculus ENSOCUG000000293721 retrocopy
retro_ocun_41,
Otolemur garnettii ENSOGAG0000000035817 retrocopies
retro_ogar_1023, retro_ogar_1026, retro_ogar_1319, retro_ogar_1403, retro_ogar_1566, retro_ogar_1960, retro_ogar_1976, retro_ogar_2050, retro_ogar_2350, retro_ogar_2528, retro_ogar_3023, retro_ogar_3413, retro_ogar_3434, retro_ogar_3457, retro_ogar_694, retro_ogar_731, retro_ogar_997,
Ochotona princeps ENSOPRG000000141863 retrocopies
retro_opri_1138, retro_opri_275, retro_opri_633,
Pongo abelii ENSPPYG000000177805 retrocopies
retro_pabe_2296, retro_pabe_24, retro_pabe_301, retro_pabe_3339, retro_pabe_678,
Pan troglodytes ENSPTRG0000001893419 retrocopies
retro_ptro_1134, retro_ptro_1736, retro_ptro_1745, retro_ptro_1811, retro_ptro_182, retro_ptro_1842, retro_ptro_219, retro_ptro_2191, retro_ptro_235, retro_ptro_2756, retro_ptro_2844, retro_ptro_2908, retro_ptro_3034, retro_ptro_3123, retro_ptro_3165, retro_ptro_3233, retro_ptro_473, retro_ptro_766, retro_ptro_993,
Pteropus vampyrus ENSPVAG000000066605 retrocopies
retro_pvam_1092, retro_pvam_1436, retro_pvam_1441, retro_pvam_545, retro_pvam_798,
Rattus norvegicus ENSRNOG000000055123 retrocopies
retro_rnor_1880, retro_rnor_2327, retro_rnor_2985,
Sorex araneus ENSSARG000000111258 retrocopies
retro_sara_160, retro_sara_203, retro_sara_316, retro_sara_339, retro_sara_49, retro_sara_536, retro_sara_659, retro_sara_747,
Sus scrofa ENSSSCG000000243136 retrocopies
retro_sscr_1155, retro_sscr_367, retro_sscr_552, retro_sscr_642, retro_sscr_682, retro_sscr_733,
Tupaia belangeri ENSTBEG0000001662916 retrocopies
retro_tbel_1049, retro_tbel_1848, retro_tbel_2008, retro_tbel_2058, retro_tbel_2194, retro_tbel_2274, retro_tbel_2423, retro_tbel_2761, retro_tbel_3262, retro_tbel_4255, retro_tbel_4309, retro_tbel_436, retro_tbel_4380, retro_tbel_4426, retro_tbel_4719, retro_tbel_815,
Tarsius syrichta ENSTSYG0000000004115 retrocopies
retro_tsyr_1427, retro_tsyr_1650, retro_tsyr_1766, retro_tsyr_1948, retro_tsyr_1973, retro_tsyr_1974, retro_tsyr_198, retro_tsyr_270, retro_tsyr_425, retro_tsyr_473, retro_tsyr_492, retro_tsyr_659, retro_tsyr_685, retro_tsyr_821, retro_tsyr_937,
Tursiops truncatus ENSTTRG000000130458 retrocopies
retro_ttru_1057, retro_ttru_132, retro_ttru_1709, retro_ttru_1745, retro_ttru_1841, retro_ttru_218, retro_ttru_257, retro_ttru_308,
Vicugna pacos ENSVPAG000000100031 retrocopy
retro_vpac_262,


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