RetrogeneDB ID:

retro_etel_557

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:GeneScaffold_9032:373898..374598(-)
Located in intron of:ENSETEG00000000071
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GAPDH
Ensembl ID:ENSETEG00000013749
Aliases:None
Description:glyceraldehyde-3-phosphate dehydrogenase [Source:HGNC Symbol;Acc:4141]


Retrocopy-Parental alignment summary:






>retro_etel_557
GTCTTCACCACCACAGAGAAGGCTGGGGCTCAGTGGAAGGGCAGTACCAAAAGGGTGATCTTTCTGTCCCTTCTGCTAAT
GCCCCCATGTTTGTGATGGGCATGAACCATGAGCAGTATGACAACTTCCTCAAGATTGTCAGCAATGCTTCTTGTGCCAA
CAACTGCTTGGGCCTCCTGGTCAAGGTCATCCATGACAACTTTGGCATCATTGAGAGACTCATGACCACAGTTGGTGTCA
TCACTGCCATCTAGATGACTGTGGATGACCCCTCTGGGCAACTCTGGCATGACGGCTGTGCAGCTGCCCAGAACATCAAT
CCCACATTTACTGGCGCTGCTAAGGCTGTGGGCAAGGTTATCCCGGAGCTGAATGCGAAACTCACTGGCGTGGCCTTCTG
TGTCCCCACCTACAATGTGTCAGGCATGGATCTCATCTGCTGTCTTGAGAAAACTGCCAAGTACGATGACATCAAGAAGA
TGGCAAAGCAGGCATCAGATGGTCCCCTAAGGGCATCCTAGGAAACACTGAAGACCAGTATGTCTCCTGTGACTTCAACA
GTGACACCCACTTTGCCACCTTTGATGCTGGGACTGACATTGCCCTCAACAACCACATTGTCAAGCTCTTTTACTGGTAT
GACAATGAATTTGGCTACAGCAACAGAGTGGTGGGCCTCATGTTCCACGTGACCTCCAAG

ORF - retro_etel_557 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.31 %
Parental protein coverage: 70.09 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalVFTTVEKAGAHLKGGAKRVI-ISAPSADAPMFVMGVNHEKYDNSLKIVSNASCTTN-LAPLAKVIHDNFG
VFTT.EKAGA..KG..KRVI..S.PSA.APMFVMG.NHE.YDN.LKIVSNASC..N.L..L.KVIHDNFG
RetrocopyVFTTTEKAGAQWKGSTKRVI<LSVPSANAPMFVMGMNHEQYDNFLKIVSNASCANNCLGLLVKVIHDNFG
ParentalIVEGLMTT-HAITATQKTVDGPSGKLWRDGRGAAQNIIPASTGAAKAVGKVIPELNRKLTGMAFRVPTPN
I.E.LMTT...ITA...TVD.PSG.LW.DG..AAQNI.P..TGAAKAVGKVIPELN.KLTG.AF.VPT.N
RetrocopyIIERLMTTVGVITAI*MTVDDPSGQLWHDGCAAAQNINPTFTGAAKAVGKVIPELNAKLTGVAFCVPTYN
ParentalVSVVDLTCRLEKAAKYDDIKKVMKQAADGPL-KGILGYTEDQVVSCDFNSDPHSSTFDAGAGIALNDHFV
VS..DL.C.LEK.AKYDDIKK..KQA.DGPL.KGILG.TEDQ.VSCDFNSD.H..TFDAG..IALN.H.V
RetrocopyVSGMDLICCLEKTAKYDDIKKMAKQASDGPL<KGILGNTEDQYVSCDFNSDTHFATFDAGTDIALNNHIV
ParentalKLISWYDNEFGYSHRVVDLMVHMASK
KL..WYDNEFGYS.RVV.LM.H..SK
RetrocopyKLFYWYDNEFGYSNRVVGLMFHVTSK

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






Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_557 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi 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 20 parental genes, and 428 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066755 retrocopies
Ailuropoda melanoleuca ENSAMEG0000001432935 retrocopies
Bos taurus ENSBTAG000000147314 retrocopies
Canis familiaris ENSCAFG000000150774 retrocopies
Callithrix jacchus ENSCJAG000000082341 retrocopy
Cavia porcellus ENSCPOG000000263501 retrocopy
Echinops telfairi ENSETEG00000013749 118 retrocopies
retro_etel_1011, retro_etel_1037, retro_etel_1070, retro_etel_1117, retro_etel_1132, retro_etel_1153, retro_etel_1171, retro_etel_1183, retro_etel_1214, retro_etel_1215, retro_etel_1247, retro_etel_1249, retro_etel_1255, retro_etel_1257, retro_etel_1258, retro_etel_1266, retro_etel_127, retro_etel_1320, retro_etel_1349, retro_etel_1352, retro_etel_1381, retro_etel_1386, retro_etel_1389, retro_etel_1408, retro_etel_1419, retro_etel_1422, retro_etel_1431, retro_etel_1437, retro_etel_1470, retro_etel_1473, retro_etel_1490, retro_etel_150, retro_etel_1511, retro_etel_1538, retro_etel_1550, retro_etel_1563, retro_etel_1570, retro_etel_1588, retro_etel_1601, retro_etel_1608, retro_etel_1620, retro_etel_163, retro_etel_1635, retro_etel_1641, retro_etel_1674, retro_etel_1679, retro_etel_1702, retro_etel_1738, retro_etel_1746, retro_etel_1759, retro_etel_1769, retro_etel_1776, retro_etel_1780, retro_etel_180, retro_etel_184, retro_etel_1840, retro_etel_1869, retro_etel_1895, retro_etel_1897, retro_etel_1949, retro_etel_1970, retro_etel_1976, retro_etel_1982, retro_etel_1989, retro_etel_2033, retro_etel_2076, retro_etel_209, retro_etel_212, retro_etel_213, retro_etel_2152, retro_etel_2161, retro_etel_2173, retro_etel_2198, retro_etel_2202, retro_etel_2210, retro_etel_243, retro_etel_290, retro_etel_330, retro_etel_339, retro_etel_340, retro_etel_365, retro_etel_397, retro_etel_432, retro_etel_440, retro_etel_463, retro_etel_489, retro_etel_495, retro_etel_504, retro_etel_536, retro_etel_557 , retro_etel_586, retro_etel_589, retro_etel_600, retro_etel_611, retro_etel_618, retro_etel_621, retro_etel_624, retro_etel_649, retro_etel_653, retro_etel_69, retro_etel_770, retro_etel_780, retro_etel_790, retro_etel_792, retro_etel_798, retro_etel_802, retro_etel_810, retro_etel_874, retro_etel_895, retro_etel_899, retro_etel_90, retro_etel_906, retro_etel_931, retro_etel_934, retro_etel_935, retro_etel_968, retro_etel_969, retro_etel_987,
Gorilla gorilla ENSGGOG0000000955330 retrocopies
Loxodonta africana ENSLAFG000000027803 retrocopies
Macaca mulatta ENSMMUG0000001867933 retrocopies
Monodelphis domestica ENSMODG0000001806641 retrocopies
Mustela putorius furoENSMPUG0000001689128 retrocopies
Mus musculus ENSMUSG00000057666109 retrocopies
retro_mmus_1029, retro_mmus_1082, retro_mmus_1136, retro_mmus_1193, retro_mmus_1249, retro_mmus_1319, retro_mmus_1328, retro_mmus_136, retro_mmus_1365, retro_mmus_1371, retro_mmus_1467, retro_mmus_1474, retro_mmus_1480, retro_mmus_1615, retro_mmus_1692, retro_mmus_1721, retro_mmus_1728, retro_mmus_1886, retro_mmus_1922, retro_mmus_1957, retro_mmus_1983, retro_mmus_1985, retro_mmus_2009, retro_mmus_2020, retro_mmus_2030, retro_mmus_2100, retro_mmus_211, retro_mmus_2119, retro_mmus_2122, retro_mmus_2148, retro_mmus_2158, retro_mmus_2175, retro_mmus_2206, retro_mmus_2216, retro_mmus_2248, retro_mmus_2298, retro_mmus_2370, retro_mmus_2371, retro_mmus_2389, retro_mmus_2463, retro_mmus_2477, retro_mmus_2481, retro_mmus_2512, retro_mmus_2556, retro_mmus_2587, retro_mmus_2623, retro_mmus_2626, retro_mmus_2647, retro_mmus_2681, retro_mmus_2755, retro_mmus_2761, retro_mmus_2764, retro_mmus_2848, retro_mmus_2872, retro_mmus_2911, retro_mmus_2912, retro_mmus_2913, retro_mmus_2914, retro_mmus_2915, retro_mmus_2920, retro_mmus_2932, retro_mmus_2943, retro_mmus_300, retro_mmus_3036, retro_mmus_3064, retro_mmus_3120, retro_mmus_3137, retro_mmus_3140, retro_mmus_3148, retro_mmus_3151, retro_mmus_3188, retro_mmus_3193, retro_mmus_3197, retro_mmus_3216, retro_mmus_3228, retro_mmus_3306, retro_mmus_3335, retro_mmus_3336, retro_mmus_3357, retro_mmus_3377, retro_mmus_3445, retro_mmus_3514, retro_mmus_3575, retro_mmus_3650, retro_mmus_3658, retro_mmus_3693, retro_mmus_3716, retro_mmus_3814, retro_mmus_416, retro_mmus_437, retro_mmus_48, retro_mmus_553, retro_mmus_608, retro_mmus_619, retro_mmus_628, retro_mmus_635, retro_mmus_698, retro_mmus_745, retro_mmus_765, retro_mmus_766, retro_mmus_787, retro_mmus_811, retro_mmus_893, retro_mmus_914, retro_mmus_921, retro_mmus_946, retro_mmus_952, retro_mmus_976, retro_mmus_996,
Ornithorhynchus anatinus ENSOANG000000044921 retrocopy
Rattus norvegicus ENSRNOG000000186304 retrocopies
Rattus norvegicus ENSRNOG000000306382 retrocopies
Sarcophilus harrisii ENSSHAG000000149534 retrocopies
Sus scrofa ENSSSCG000000006942 retrocopies
Tursiops truncatus ENSTTRG000000160942 retrocopies
Xenopus tropicalis ENSXETG000000339751 retrocopy



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