RetrogeneDB ID:

retro_ttru_1035

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_100528:11284..11773(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NECAP1
Ensembl ID:ENSTTRG00000014260
Aliases:None
Description:NECAP endocytosis associated 1 [Source:HGNC Symbol;Acc:24539]


Retrocopy-Parental alignment summary:






>retro_ttru_1035
ATGGCGGCCGAGTTGGAGTACGAGTCTGTTCTGTGTGTGAAACCCAATGTCAGCATCTACCCGATTCTTCCCTGGGCCTC
CAACCACAGTTGCAGGGCATCTGACTGGAAATTAGATCAATCTGATTGGACTGGTCGCCTCTGAATCACTTCAAAAGGGA
AGATTGCTTATATCAAACTCGAGGATAAAGTTTCAGGGGAGCTCTTTGCTCAGGCACCAGTAGAAAAATATCCTGGTATT
ACTGTGGAGACAGTGACAGATTCCAGCTGCTACTTTGTAATCCGGATCCAGAATGGTACTGGGCATAGTGCTTTCATTGG
CATTGGCTTCTCAGATCGGGGTGATGCCTTCGACTTTAATGTCTCATTGCAAGATCACTTCAAGTGGGTAAAGCAGGAAT
CTGAGATTTCCAAAGAATCTCAGGAAATGGATAATAGTCCCAAGTTGGATCTGGACTTCAAGGAAGGGCAGACCATCAAG
TTGAGGGTG

ORF - retro_ttru_1035 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.34 %
Parental protein coverage: 59.27 %
Number of stop codons detected: 1
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMAAELEYESVLCVKPDVSVYRIPPRASNRGYRASDWKLDQPDWTGRLRITSKGKIAYIKLEDKVSGELFA
MAAELEYESVLCVKP.VS.Y.I.P.ASN...RASDWKLDQ.DWTGRL.ITSKGKIAYIKLEDKVSGELFA
RetrocopyMAAELEYESVLCVKPNVSIYPILPWASNHSCRASDWKLDQSDWTGRL*ITSKGKIAYIKLEDKVSGELFA
ParentalQAPVEQYPGIAVETVTDSSRYFVIRIQDGTGRSAFIGIGFSDRGDAFDFNVSLQDHFKWVKQESEISKES
QAPVE.YPGI.VETVTDSS.YFVIRIQ.GTG.SAFIGIGFSDRGDAFDFNVSLQDHFKWVKQESEISKES
RetrocopyQAPVEKYPGITVETVTDSSCYFVIRIQNGTGHSAFIGIGFSDRGDAFDFNVSLQDHFKWVKQESEISKES
ParentalQEMDNRPKLDLGFKEGQTIKLSI
QEMDN.PKLDL.FKEGQTIKL..
RetrocopyQEMDNSPKLDLDFKEGQTIKLRV

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






RNA-Seq - click to see more details

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tursiops truncatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ttru_1035 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1035 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 15 parental genes, and 19 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000169891 retrocopy
retro_amel_1016,
Canis familiaris ENSCAFG000000139301 retrocopy
retro_cfam_780,
Choloepus hoffmanni ENSCHOG000000080873 retrocopies
retro_chof_1692, retro_chof_1818, retro_chof_1913,
Dasypus novemcinctus ENSDNOG000000147782 retrocopies
retro_dnov_613, retro_dnov_986,
Homo sapiens ENSG000000898181 retrocopy
retro_hsap_3839,
Gorilla gorilla ENSGGOG000000102331 retrocopy
retro_ggor_2585,
Loxodonta africana ENSLAFG000000029791 retrocopy
retro_lafr_632,
Mustela putorius furoENSMPUG000000167421 retrocopy
retro_mputfur_361,
Nomascus leucogenys ENSNLEG000000017431 retrocopy
retro_nleu_1974,
Otolemur garnettii ENSOGAG000000063581 retrocopy
retro_ogar_3442,
Pongo abelii ENSPPYG000000042381 retrocopy
retro_pabe_3059,
Pan troglodytes ENSPTRG000000232771 retrocopy
retro_ptro_2615,
Rattus norvegicus ENSRNOG000000092361 retrocopy
retro_rnor_1806,
Ictidomys tridecemlineatus ENSSTOG000000101532 retrocopies
retro_itri_1107, retro_itri_740,
Tursiops truncatus ENSTTRG00000014260 1 retrocopy
retro_ttru_1035 ,


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