RetrogeneDB ID:

retro_nleu_2163

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397333.1:1537906..1538433(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FTH1
Ensembl ID:ENSNLEG00000003321
Aliases:None
Description:Ferritin [Source:UniProtKB/TrEMBL;Acc:G1QT22]


Retrocopy-Parental alignment summary:






>retro_nleu_2163
CAGGTGCGACGTTACCACCACCCCTGCTGTGAGGCCGCCATCAACACCCACAACAGCCTGGAGCTCCACGCATCCTATGT
GTACCTGTCCATGGTTTCTACTTCGACCAGGACGACGAGGCCCTGGAGCACTTTGACCGCTACTTCCTGCGCCAGTTGCA
GGAGAAAAGGGAGCATGCCCAAGAGCTGATGAGGCTGCAGAACCTGCGCGGTGGCCGCATCTACCTTTATGACATCAGGA
AGCCAGAATGCCGAGGCTGGGAGAGCGGGCTCAAGGCCATGGAGTGCGCCTTCCACCTGGAGAAGAGCATCAACCAGAGC
CTCCTGGGGCTGCACCAGCTGGCCAAGGAGAACGGTGACCCCCAGCTCTGCGACTTCCTGGAGAACCACTTCCTGAACCA
GCAGGCCAAGACCATCAAGGAGCTGGGTGGCTACCTGAGCAACCTGCGCGAGATGGGGGCCCCGGAAGCAGGCCTGGCAG
AGTACCTCGTTGACAAGCTCACCCTGGGCGGCAGCCAGAAACACACC

ORF - retro_nleu_2163 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.84 %
Parental protein coverage: 96.17 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalQVRQNYHQDSEAAINRQINLELYASYVYLSM-SYYFDRDDVALKNFAKYFLHQSHEEREHAERLMKLQNQ
QVR...H...EAAIN....LEL.ASYVYLSM...YFD.DD.AL..F..YFL.Q..E.REHA..LM.LQN.
RetrocopyQVRRYHHPCCEAAINTHNSLELHASYVYLSM<GFYFDQDDEALEHFDRYFLRQLQEKREHAQELMRLQNL
ParentalRGGRIFLQDIKKPDCDDWESGLNAMECALHLEKNVNQSLLELHKLATDKNDPHLCDFIETHYLNEQVKAI
RGGRI.L.DI.KP.C..WESGL.AMECA.HLEK..NQSLL.LH.LA....DP.LCDF.E.H.LN.Q.K.I
RetrocopyRGGRIYLYDIRKPECRGWESGLKAMECAFHLEKSINQSLLGLHQLAKENGDPQLCDFLENHFLNQQAKTI
ParentalKELGDHVTNLRKMGAPESGLAEYLFDKHTLGDSDNES
KELG....NLR.MGAPE.GLAEYL.DK.TLG.S....
RetrocopyKELGGYLSNLREMGAPEAGLAEYLVDKLTLGGSQKHT

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






RNA-Seq - click to see more details

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Nomascus leucogenys was not studied using ChIP-Seq data.

EST - click to see more details

Nomascus leucogenys was not studied using EST data.

TSS - click to see more details

Nomascus leucogenys was not studied using FANTOM5 data.

Lab - click to see more details

retro_nleu_2163 was not experimentally validated.

Retrocopy orthology:
Nomascus leucogenys 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 21 parental genes, and 261 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000168311 retrocopy
retro_amel_115,
Canis familiaris ENSCAFG000000159011 retrocopy
retro_cfam_150,
Callithrix jacchus ENSCJAG0000001908916 retrocopies
retro_cjac_1570, retro_cjac_1634, retro_cjac_2115, retro_cjac_2233, retro_cjac_230, retro_cjac_232, retro_cjac_2320, retro_cjac_2531, retro_cjac_278, retro_cjac_2843, retro_cjac_2857, retro_cjac_485, retro_cjac_519, retro_cjac_699, retro_cjac_767, retro_cjac_804,
Cavia porcellus ENSCPOG000000265863 retrocopies
retro_cpor_1309, retro_cpor_15, retro_cpor_157,
Dasypus novemcinctus ENSDNOG0000001712883 retrocopies
retro_dnov_1017, retro_dnov_1074, retro_dnov_1078, retro_dnov_110, retro_dnov_1179, retro_dnov_1188, retro_dnov_1196, retro_dnov_1201, retro_dnov_1205, retro_dnov_1271, retro_dnov_1352, retro_dnov_1356, retro_dnov_1369, retro_dnov_1397, retro_dnov_1415, retro_dnov_1425, retro_dnov_1446, retro_dnov_1489, retro_dnov_1526, retro_dnov_1535, retro_dnov_1554, retro_dnov_1565, retro_dnov_162, retro_dnov_1627, retro_dnov_1640, retro_dnov_1777, retro_dnov_1787, retro_dnov_1792, retro_dnov_1827, retro_dnov_1851, retro_dnov_1865, retro_dnov_1875, retro_dnov_189, retro_dnov_197, retro_dnov_2005, retro_dnov_2065, retro_dnov_2093, retro_dnov_2097, retro_dnov_2109, retro_dnov_2124, retro_dnov_2136, retro_dnov_2154, retro_dnov_2173, retro_dnov_220, retro_dnov_2216, retro_dnov_2231, retro_dnov_2241, retro_dnov_2251, retro_dnov_2356, retro_dnov_2388, retro_dnov_2399, retro_dnov_242, retro_dnov_2443, retro_dnov_2444, retro_dnov_2454, retro_dnov_2476, retro_dnov_2483, retro_dnov_2489, retro_dnov_2511, retro_dnov_2528, retro_dnov_2554, retro_dnov_2579, retro_dnov_2607, retro_dnov_2626, retro_dnov_2646, retro_dnov_304, retro_dnov_383, retro_dnov_409, retro_dnov_422, retro_dnov_471, retro_dnov_517, retro_dnov_52, retro_dnov_55, retro_dnov_589, retro_dnov_61, retro_dnov_661, retro_dnov_675, retro_dnov_722, retro_dnov_726, retro_dnov_810, retro_dnov_864, retro_dnov_890, retro_dnov_994,
Felis catus ENSFCAG000000073821 retrocopy
retro_fcat_887,
Homo sapiens ENSG0000016799620 retrocopies
retro_hsap_1243, retro_hsap_139, retro_hsap_1432, retro_hsap_2240, retro_hsap_2351, retro_hsap_2662, retro_hsap_2835, retro_hsap_2985, retro_hsap_2996, retro_hsap_316, retro_hsap_3208, retro_hsap_3293, retro_hsap_3589, retro_hsap_4083, retro_hsap_4232, retro_hsap_4671, retro_hsap_484, retro_hsap_81, retro_hsap_87, retro_hsap_898,
Gorilla gorilla ENSGGOG000000277227 retrocopies
retro_ggor_1313, retro_ggor_153, retro_ggor_1671, retro_ggor_1858, retro_ggor_2835, retro_ggor_64, retro_ggor_726,
Latimeria chalumnae ENSLACG000000174261 retrocopy
retro_lcha_75,
Loxodonta africana ENSLAFG0000000482412 retrocopies
retro_lafr_106, retro_lafr_1080, retro_lafr_1129, retro_lafr_138, retro_lafr_321, retro_lafr_433, retro_lafr_523, retro_lafr_53, retro_lafr_624, retro_lafr_717, retro_lafr_760, retro_lafr_966,
Myotis lucifugus ENSMLUG0000002572616 retrocopies
retro_mluc_1030, retro_mluc_1142, retro_mluc_1211, retro_mluc_1354, retro_mluc_1464, retro_mluc_1769, retro_mluc_1984, retro_mluc_2002, retro_mluc_2091, retro_mluc_212, retro_mluc_2635, retro_mluc_361, retro_mluc_532, retro_mluc_556, retro_mluc_850, retro_mluc_885,
Monodelphis domestica ENSMODG000000075829 retrocopies
retro_mdom_1134, retro_mdom_122, retro_mdom_1294, retro_mdom_1407, retro_mdom_1742, retro_mdom_300, retro_mdom_564, retro_mdom_643, retro_mdom_809,
Mus musculus ENSMUSG000000246614 retrocopies
retro_mmus_2856, retro_mmus_3417, retro_mmus_3660, retro_mmus_45,
Nomascus leucogenys ENSNLEG00000003321 29 retrocopies
retro_nleu_1036, retro_nleu_1157, retro_nleu_136, retro_nleu_1411, retro_nleu_1503, retro_nleu_1532, retro_nleu_1732, retro_nleu_1886, retro_nleu_2049, retro_nleu_2143, retro_nleu_2162, retro_nleu_2163 , retro_nleu_2281, retro_nleu_2356, retro_nleu_2357, retro_nleu_2358, retro_nleu_2359, retro_nleu_2360, retro_nleu_2361, retro_nleu_2417, retro_nleu_2433, retro_nleu_2962, retro_nleu_303, retro_nleu_383, retro_nleu_72, retro_nleu_738, retro_nleu_747, retro_nleu_78, retro_nleu_936,
Nomascus leucogenys ENSNLEG0000000471610 retrocopies
retro_nleu_1099, retro_nleu_1332, retro_nleu_1871, retro_nleu_1977, retro_nleu_2028, retro_nleu_2180, retro_nleu_2294, retro_nleu_2715, retro_nleu_272, retro_nleu_290,
Oryctolagus cuniculus ENSOCUG000000141084 retrocopies
retro_ocun_1172, retro_ocun_1179, retro_ocun_1598, retro_ocun_93,
Procavia capensis ENSPCAG0000001037713 retrocopies
retro_pcap_177, retro_pcap_217, retro_pcap_248, retro_pcap_276, retro_pcap_344, retro_pcap_348, retro_pcap_374, retro_pcap_379, retro_pcap_383, retro_pcap_395, retro_pcap_447, retro_pcap_5, retro_pcap_62,
Pongo abelii ENSPPYG0000000317312 retrocopies
retro_pabe_1034, retro_pabe_1186, retro_pabe_2410, retro_pabe_2483, retro_pabe_2484, retro_pabe_249, retro_pabe_3351, retro_pabe_3406, retro_pabe_35, retro_pabe_3713, retro_pabe_47, retro_pabe_479,
Rattus norvegicus ENSRNOG000000226199 retrocopies
retro_rnor_1197, retro_rnor_1280, retro_rnor_1356, retro_rnor_1832, retro_rnor_2060, retro_rnor_2163, retro_rnor_264, retro_rnor_427, retro_rnor_71,
Sus scrofa ENSSSCG000000145409 retrocopies
retro_sscr_1045, retro_sscr_168, retro_sscr_286, retro_sscr_359, retro_sscr_498, retro_sscr_581, retro_sscr_78, retro_sscr_906, retro_sscr_949,
Ictidomys tridecemlineatus ENSSTOG000000145211 retrocopy
retro_itri_250,


Copyright © RetrogeneDB 2014-2017