RetrogeneDB ID:

retro_ttru_1312

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_110260:181947..182400(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:LIN28A
Ensembl ID:ENSTTRG00000005678
Aliases:None
Description:lin-28 homolog A (C. elegans) [Source:HGNC Symbol;Acc:15986]


Retrocopy-Parental alignment summary:






>retro_ttru_1312
TCCGGGGTCACACTCGACCCCACCCTCACCCCGGCGGATGTCTTTGTGCACCAGAGTAAGCTGCACATGGAGGGCTTCCG
GAGCCTGAAGGAGGGTGAGGCCGTAGAGTTCACCTTTAAGAAGTCTGCCAAGGGCCTGGAATCGATCCAAGTCACCGGCC
CTGGTGGGGTGTCCTGCACTGGGAGCGAGAGGTGGCCCAAATGGAAGAACATGCAGAAACGCAGATCAAAGGGAGATAGG
TGCTACAACTGTGGAGGTCTAGGCCATCATGCCAAGGAATGCAAACGGCCACCCCAGCCCAAAGAGTGCCACTTCTGCCA
GAGCATCAACCATATGGTAGCCTCGCGTCCACTGAAGGCCCAGCAAGCTCCCAGCTCCCAGGGAAAGCCAGCCTACTTTC
GGCAGGAGGAAGAAGAGATCCATAGCCCTGCCATGCTCCCCGAGGCCCAGAAT

ORF - retro_ttru_1312 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.74 %
Parental protein coverage: 76.29 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalAGVALDP---PVDVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIRVTGPGGVFCIGSERRPKGKN
.GV.LDP...P.DVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESI.VTGPGGV.C.GSER.PK.KN
RetrocopySGVTLDPTLTPADVFVHQSKLHMEGFRSLKEGEAVEFTFKKSAKGLESIQVTGPGGVSCTGSERWPKWKN
ParentalMQKRRSKGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCPLKAQQAPSSQGKPACFREEEEEI
MQKRRSKGDRCYNCGGL.HHAKECK.PPQPK.CHFCQSINHMVAS.PLKAQQAPSSQGKPA.FR.EEEEI
RetrocopyMQKRRSKGDRCYNCGGLGHHAKECKRPPQPKECHFCQSINHMVASRPLKAQQAPSSQGKPAYFRQEEEEI
ParentalHSPAMLPEAQN
HSPAMLPEAQN
RetrocopyHSPAMLPEAQN

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






Tursiops truncatus was not studied using RNA-Seq expression data.
Tursiops truncatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ttru_1312 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1312 was not experimentally validated.

Retrocopy orthology:
Tursiops truncatus 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 16 parental genes, and 39 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000105822 retrocopies
Bos taurus ENSBTAG000000404973 retrocopies
Callithrix jacchus ENSCJAG000000097965 retrocopies
Cavia porcellus ENSCPOG000000196461 retrocopy
Dasypus novemcinctus ENSDNOG000000107105 retrocopies
Homo sapiens ENSG000001319142 retrocopies
Gorilla gorilla ENSGGOG000000249182 retrocopies
Myotis lucifugus ENSMLUG000000101581 retrocopy
Nomascus leucogenys ENSNLEG000000092944 retrocopies
Oryctolagus cuniculus ENSOCUG000000002991 retrocopy
Otolemur garnettii ENSOGAG000000039711 retrocopy
Pongo abelii ENSPPYG000000016843 retrocopies
Pan troglodytes ENSPTRG000000003842 retrocopies
Rattus norvegicus ENSRNOG000000384092 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000043291 retrocopy
Tursiops truncatus ENSTTRG00000005678 4 retrocopies



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