RetrogeneDB ID:

retro_ttru_945

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_743:152285..152876(-)
Located in intron of:ENSTTRG00000015666
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CHAC1
Ensembl ID:ENSTTRG00000011476
Aliases:None
Description:ChaC, cation transport regulator homolog 1 (E. coli) [Source:HGNC Symbol;Acc:28680]


Retrocopy-Parental alignment summary:






>retro_ttru_945
CCCAGAACACCCCACCCCCAGGACGACGGCGGCCCCCAAGCGCTGTGGATTTCCGGGTACGGCTCCCTGGTGTGGAGGCC
TGACTTCGCCTACAGCGACAGCCGTGTGGGCTTCGTGCACCGCTACAGCGGCCGCCTCTGACAGGGAGACACCTTCCATC
AGGGCAGTGACAAGATGCCTGGTCGTGTGGTGACCCTCCCTGAAGATCGTGAGGGCTGCACTTGGGGTGTGGCGTACCAG
GTGCAAGGTGAGCAGGTCAATGAGGCCCTGAAGTACTTGAACGTGTGGGAGGCAGTGCTTGGTAGCTATGATACCAAGGA
GGTCACCTTCTGCCCTCAAGATGCCCCTGACCAACCACTCAAGGCACTGGCCTACGTGGCCACCCCGCAGAACCCTGGTT
ACCTGGGCCCTGCGCCTGAGGAGGCCATTGCTACGCAGATCCTGGCCTGCTGAGGCTTCTCTGGCCACAGTCTTGAGTAC
TTGCTGCGCCTGGCAGACTTCAGGCAGCTCTGTGGGCCCCAGGCACAGGACGAGCACCTGGCAGCCATCGTGGATGCTGT
AGGCACCATGCTGCCCTGCTTCTGCCCCACT

ORF - retro_ttru_945 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.82 %
Parental protein coverage: 92.86 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalPPSQHPQDDCDPQALWIFGYGSLVWRPDFAYSDSRVGFVRGYSRRFWQGDTFHRGSDKMPGRVVTLLEDR
P...HPQDD..PQALWI.GYGSLVWRPDFAYSDSRVGFV..YS.R..QGDTFH.GSDKMPGRVVTL.EDR
RetrocopyPRTPHPQDDGGPQALWISGYGSLVWRPDFAYSDSRVGFVHRYSGRL*QGDTFHQGSDKMPGRVVTLPEDR
ParentalEGCTWGVAYQVQGEQVNEALKYLNVREAVLGSYDTKEVTFYPQDTPDQPLKALAYVATPQNPGYLGPAPE
EGCTWGVAYQVQGEQVNEALKYLNV.EAVLGSYDTKEVTF.PQD.PDQPLKALAYVATPQNPGYLGPAPE
RetrocopyEGCTWGVAYQVQGEQVNEALKYLNVWEAVLGSYDTKEVTFCPQDAPDQPLKALAYVATPQNPGYLGPAPE
ParentalEAIATQILVCRGFSGHNLEYLLRLTDFMQLCGPQAQDEHLAAI-DA-STMLPCFCPT
EAIATQIL.C.GFSGH.LEYLLRL.DF.QLCGPQAQDEHLAAI.DA..TMLPCFCPT
RetrocopyEAIATQILAC*GFSGHSLEYLLRLADFRQLCGPQAQDEHLAAIVDAVGTMLPCFCPT

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_945 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_945 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 3 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG000000175311 retrocopy
Otolemur garnettii ENSOGAG000000245411 retrocopy
Tursiops truncatus ENSTTRG00000011476 2 retrocopies
retro_ttru_1747, retro_ttru_945 ,



Copyright © RetrogeneDB 2014-2017