RetrogeneDB ID:

retro_tbel_1174

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:GeneScaffold_401:108784..109010(-)
Located in intron of:ENSTBEG00000001648
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSTBEG00000017381
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_tbel_1174
ATGAGCAAAGCTCACCCTCCTGAGTTGAAAAATTTGTGGACAAGAAGTTTCATTGAAATTAAATGGTGGCAGACATGCCC
AAGGAATATTGCGGGGATTTGATTCATTTATGAATTTTGCGATAGATGAATGCGTAAAGATGGCGACTAGTGAGCAACAG
AGTAATACTGGAATGAAGGTAATACGAGGAAATATGATCATTGTGTTGGAAGTCTTGGAACGAGTA

ORF - retro_tbel_1174 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.92 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalMSKAHPPELK-KFMDKK-LSLKLNGGRHVQGILRGFDPFMNLVIDECVEMATSGQQNNXXXXVIRGNSII
MSKAHPPELK.KF.DKK..SLKLNGGRH.QGILRGFD.FMN..IDECV.MATS.QQ.N....VIRGN.II
RetrocopyMSKAHPPELK<KFVDKK<VSLKLNGGRHAQGILRGFDSFMNFAIDECVKMATSEQQSNTGMKVIRGNMII
ParentalMLEALERV
.LE.LERV
RetrocopyVLEVLERV

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






RNA-Seq - click to see more details

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tupaia belangeri was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_tbel_1174 retrocopy.

TSS - click to see more details

Tupaia belangeri was not studied using FANTOM5 data.

Lab - click to see more details

retro_tbel_1174 was not experimentally validated.

Retrocopy orthology:
Tupaia belangeri 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 32 parental genes, and 283 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000160009 retrocopies
retro_amel_1577, retro_amel_1618, retro_amel_1671, retro_amel_1795, retro_amel_186, retro_amel_466, retro_amel_563, retro_amel_747, retro_amel_944,
Canis familiaris ENSCAFG0000003259514 retrocopies
retro_cfam_1060, retro_cfam_1458, retro_cfam_1871, retro_cfam_1984, retro_cfam_2210, retro_cfam_279, retro_cfam_306, retro_cfam_313, retro_cfam_407, retro_cfam_505, retro_cfam_817, retro_cfam_956, retro_cfam_967, retro_cfam_991,
Choloepus hoffmanni ENSCHOG000000001303 retrocopies
retro_chof_2006, retro_chof_214, retro_chof_284,
Callithrix jacchus ENSCJAG0000001931318 retrocopies
retro_cjac_1034, retro_cjac_1227, retro_cjac_1398, retro_cjac_149, retro_cjac_1897, retro_cjac_223, retro_cjac_2419, retro_cjac_2431, retro_cjac_2658, retro_cjac_2795, retro_cjac_3246, retro_cjac_3314, retro_cjac_4078, retro_cjac_547, retro_cjac_763, retro_cjac_796, retro_cjac_897, retro_cjac_998,
Cavia porcellus ENSCPOG000000250226 retrocopies
retro_cpor_1323, retro_cpor_145, retro_cpor_531, retro_cpor_573, retro_cpor_673, retro_cpor_843,
Dasypus novemcinctus ENSDNOG0000001944618 retrocopies
retro_dnov_1104, retro_dnov_1138, retro_dnov_1150, retro_dnov_1207, retro_dnov_1232, retro_dnov_1297, retro_dnov_221, retro_dnov_2273, retro_dnov_2295, retro_dnov_249, retro_dnov_269, retro_dnov_272, retro_dnov_435, retro_dnov_518, retro_dnov_520, retro_dnov_564, retro_dnov_647, retro_dnov_883,
Dipodomys ordii ENSDORG000000056232 retrocopies
retro_dord_253, retro_dord_483,
Equus caballus ENSECAG000000199895 retrocopies
retro_ecab_1080, retro_ecab_197, retro_ecab_376, retro_ecab_410, retro_ecab_693,
Echinops telfairi ENSETEG0000001002812 retrocopies
retro_etel_1019, retro_etel_131, retro_etel_1519, retro_etel_1999, retro_etel_2026, retro_etel_329, retro_etel_363, retro_etel_407, retro_etel_428, retro_etel_520, retro_etel_648, retro_etel_739,
Felis catus ENSFCAG000000081188 retrocopies
retro_fcat_1006, retro_fcat_1092, retro_fcat_1248, retro_fcat_1467, retro_fcat_1893, retro_fcat_562, retro_fcat_82, retro_fcat_90,
Homo sapiens ENSG0000014397712 retrocopies
retro_hsap_1187, retro_hsap_1267, retro_hsap_1413, retro_hsap_1784, retro_hsap_1943, retro_hsap_1968, retro_hsap_2139, retro_hsap_2241, retro_hsap_2392, retro_hsap_296, retro_hsap_3786, retro_hsap_810,
Gorilla gorilla ENSGGOG000000221693 retrocopies
retro_ggor_1413, retro_ggor_1672, retro_ggor_664,
Loxodonta africana ENSLAFG000000023013 retrocopies
retro_lafr_428, retro_lafr_559, retro_lafr_887,
Microcebus murinus ENSMICG0000001536910 retrocopies
retro_mmur_1419, retro_mmur_1468, retro_mmur_1550, retro_mmur_265, retro_mmur_395, retro_mmur_59, retro_mmur_595, retro_mmur_625, retro_mmur_735, retro_mmur_901,
Myotis lucifugus ENSMLUG000000264903 retrocopies
retro_mluc_273, retro_mluc_46, retro_mluc_731,
Macaca mulatta ENSMMUG000000079613 retrocopies
retro_mmul_1021, retro_mmul_2048, retro_mmul_300,
Monodelphis domestica ENSMODG000000115281 retrocopy
retro_mdom_1945,
Mustela putorius furoENSMPUG000000072212 retrocopies
retro_mputfur_100, retro_mputfur_114,
Mus musculus ENSMUSG000000572781 retrocopy
retro_mmus_186,
Nomascus leucogenys ENSNLEG000000101821 retrocopy
retro_nleu_93,
Oryctolagus cuniculus ENSOCUG000000112142 retrocopies
retro_ocun_1032, retro_ocun_57,
Otolemur garnettii ENSOGAG0000001530013 retrocopies
retro_ogar_1138, retro_ogar_1691, retro_ogar_1982, retro_ogar_2533, retro_ogar_2626, retro_ogar_2696, retro_ogar_2787, retro_ogar_3149, retro_ogar_3386, retro_ogar_351, retro_ogar_638, retro_ogar_745, retro_ogar_836,
Ochotona princeps ENSOPRG000000010936 retrocopies
retro_opri_290, retro_opri_330, retro_opri_596, retro_opri_599, retro_opri_757, retro_opri_823,
Pongo abelii ENSPPYG0000001232414 retrocopies
retro_pabe_1054, retro_pabe_1078, retro_pabe_1079, retro_pabe_1169, retro_pabe_1188, retro_pabe_1465, retro_pabe_1603, retro_pabe_1728, retro_pabe_1929, retro_pabe_2041, retro_pabe_2160, retro_pabe_3093, retro_pabe_495, retro_pabe_95,
Pan troglodytes ENSPTRG0000001202911 retrocopies
retro_ptro_1194, retro_ptro_1297, retro_ptro_1314, retro_ptro_1565, retro_ptro_1585, retro_ptro_243, retro_ptro_2568, retro_ptro_563, retro_ptro_814, retro_ptro_867, retro_ptro_967,
Pteropus vampyrus ENSPVAG000000048553 retrocopies
retro_pvam_612, retro_pvam_613, retro_pvam_666,
Rattus norvegicus ENSRNOG000000165071 retrocopy
retro_rnor_409,
Sus scrofa ENSSSCG000000247761 retrocopy
retro_sscr_907,
Ictidomys tridecemlineatus ENSSTOG0000000865411 retrocopies
retro_itri_1116, retro_itri_1260, retro_itri_128, retro_itri_1395, retro_itri_1871, retro_itri_280, retro_itri_353, retro_itri_572, retro_itri_589, retro_itri_910, retro_itri_947,
Tupaia belangeri ENSTBEG00000017381 66 retrocopies
retro_tbel_1010, retro_tbel_1076, retro_tbel_1114, retro_tbel_1133, retro_tbel_1161, retro_tbel_1164, retro_tbel_1174 , retro_tbel_121, retro_tbel_1288, retro_tbel_1448, retro_tbel_1461, retro_tbel_147, retro_tbel_1478, retro_tbel_149, retro_tbel_164, retro_tbel_1654, retro_tbel_1887, retro_tbel_1939, retro_tbel_1944, retro_tbel_1965, retro_tbel_1966, retro_tbel_1997, retro_tbel_2001, retro_tbel_2143, retro_tbel_217, retro_tbel_236, retro_tbel_239, retro_tbel_241, retro_tbel_2454, retro_tbel_2462, retro_tbel_2572, retro_tbel_2664, retro_tbel_2941, retro_tbel_3098, retro_tbel_3379, retro_tbel_3385, retro_tbel_343, retro_tbel_347, retro_tbel_3495, retro_tbel_3559, retro_tbel_3603, retro_tbel_362, retro_tbel_3699, retro_tbel_3980, retro_tbel_3981, retro_tbel_3983, retro_tbel_4010, retro_tbel_4011, retro_tbel_4177, retro_tbel_4196, retro_tbel_43, retro_tbel_4399, retro_tbel_4442, retro_tbel_4505, retro_tbel_4549, retro_tbel_4609, retro_tbel_465, retro_tbel_489, retro_tbel_697, retro_tbel_726, retro_tbel_736, retro_tbel_805, retro_tbel_921, retro_tbel_93, retro_tbel_936, retro_tbel_947,
Tarsius syrichta ENSTSYG0000000572911 retrocopies
retro_tsyr_1202, retro_tsyr_134, retro_tsyr_1440, retro_tsyr_1592, retro_tsyr_1747, retro_tsyr_2038, retro_tsyr_222, retro_tsyr_287, retro_tsyr_322, retro_tsyr_431, retro_tsyr_698,
Vicugna pacos ENSVPAG0000000745210 retrocopies
retro_vpac_182, retro_vpac_196, retro_vpac_25, retro_vpac_290, retro_vpac_295, retro_vpac_352, retro_vpac_42, retro_vpac_59, retro_vpac_591, retro_vpac_641,


Copyright © RetrogeneDB 2014-2017