RetrogeneDB ID:

retro_ttru_1500

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_114723:73047..73823(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MRPS15
Ensembl ID:ENSTTRG00000002345
Aliases:None
Description:mitochondrial ribosomal protein S15 [Source:HGNC Symbol;Acc:14504]


Retrocopy-Parental alignment summary:






>retro_ttru_1500
ATGCTGAGGGCGGCGTGGAGGGCGCTGAGTTCGATTCGGACCCAGGGAGTGACTCAGGCCCCAGTCCTCGGGCTGCCGGG
TGGAGGGTGCGCAAAGCTTCTCTCCATCCAGCGGGACCTTCCCTCACGTCCTGGAGGTCTTATCCTCTGGGCCACCCGCA
GATATGCCACCCAGACACCAGTCCAGCCCAGCCATGAAGATGACCTGTCCCCTTCTATGCTGCTCAAGGACTACCAGGAC
ATCCCTGGAATTGAGAAGGTTGATGGTGTCGTGAAAAAACTCTTATCTTTGGAAATGGCCAACCAGAAAGAGAAGCTAAA
AATCAAGAAAGAGCAGTTGATGAACAAGGTCGTGGAAAAGCCTAAGGACACCAGCTCCCTGGAGGCTCGAATTGTTGCGT
TGACTGTCAAGATCCGCAGTTGTGAAGAACACATGAAGAAACATCGAAAGGACAAAGCCCACAAGCGCTATCTGATGATG
AGCATTGATCAGAGGAAAAAGATGCTCAAAACCCTCCGCAAGACCAGCTATACTGTCTTTGAGAAGACATGCAGGGAGCT
GGGGATTGAGTACACCTTTCCCCCTCTGTACTACTGAAAAACCCACCGCCGCTGGGTGACCAAAAAGGCTCTGTACATTC
GGGTTTTCCAAGAGGCTCAAAAGCTGGAGAAGCAAACCGGGCCTTAAAAGCTGCAGCTGCAGCAGTCCGGAAACAAGTCC
AGAAGAACCCAGAGAGCCCTTCCAAAACTGGACCAGAGGCAATCAAAGAAAACCAA

ORF - retro_ttru_1500 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.08 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 1
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMLRAAWRALSSIRTQAVTQAPVLGLPGGGCAKLLSVQRDLPSRPGGFILRAARGYATQKPVQPSHEDDPP
MLRAAWRALSSIRTQ.VTQAPVLGLPGGGCAKLLS.QRDLPSRPGG.IL.A.R.YATQ.PVQPSHEDD..
RetrocopyMLRAAWRALSSIRTQGVTQAPVLGLPGGGCAKLLSIQRDLPSRPGGLILWATRRYATQTPVQPSHEDDLS
ParentalPSMLLKDYQDIPGIEKVDDVVKKLLSLEMANQKEKLKVKKEQLMNKVVENPKDTGSLEARIVALTVKIHS
PSMLLKDYQDIPGIEKVD.VVKKLLSLEMANQKEKLK.KKEQLMNKVVE.PKDT.SLEARIVALTVKI.S
RetrocopyPSMLLKDYQDIPGIEKVDGVVKKLLSLEMANQKEKLKIKKEQLMNKVVEKPKDTSSLEARIVALTVKIRS
ParentalYEAHMQKHRKDKAHKRYLLMSIDQRKKMLKNLRKTNYAVFEKTCRELGIEYTFPPLYYRKAHRRWVTKKA
.E.HM.KHRKDKAHKRYL.MSIDQRKKMLK.LRKT.Y.VFEKTCRELGIEYTFPPLYY.K.HRRWVTKKA
RetrocopyCEEHMKKHRKDKAHKRYLMMSIDQRKKMLKTLRKTSYTVFEKTCRELGIEYTFPPLYY*KTHRRWVTKKA
ParentalLCIRVFQEAQKLKKQ-KRALKAAAAA-QKQHQKNPERPSKTGPEAIKENQ
L.IRVFQEAQKL.KQ..RALKAAAAA..KQ.QKNPE.PSKTGPEAIKENQ
RetrocopyLYIRVFQEAQKLEKQ<NRALKAAAAAVRKQVQKNPESPSKTGPEAIKENQ

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_1500 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1500 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 19 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000014631 retrocopy
retro_amel_1564,
Canis familiaris ENSCAFG000000303901 retrocopy
retro_cfam_1939,
Callithrix jacchus ENSCJAG000000018523 retrocopies
retro_cjac_3095, retro_cjac_761, retro_cjac_859,
Cavia porcellus ENSCPOG000000108771 retrocopy
retro_cpor_430,
Dipodomys ordii ENSDORG000000075811 retrocopy
retro_dord_118,
Felis catus ENSFCAG000000052651 retrocopy
retro_fcat_915,
Homo sapiens ENSG000001168981 retrocopy
retro_hsap_1594,
Myotis lucifugus ENSMLUG000000064751 retrocopy
retro_mluc_1945,
Monodelphis domestica ENSMODG000000178131 retrocopy
retro_mdom_1094,
Mus musculus ENSMUSG000000288611 retrocopy
retro_mmus_3447,
Nomascus leucogenys ENSNLEG000000114671 retrocopy
retro_nleu_615,
Otolemur garnettii ENSOGAG000000026562 retrocopies
retro_ogar_1327, retro_ogar_16,
Pongo abelii ENSPPYG000000015371 retrocopy
retro_pabe_1310,
Pan troglodytes ENSPTRG000000005411 retrocopy
retro_ptro_1071,
Sus scrofa ENSSSCG000000263931 retrocopy
retro_sscr_1190,
Ictidomys tridecemlineatus ENSSTOG000000006081 retrocopy
retro_itri_454,
Tupaia belangeri ENSTBEG000000009584 retrocopies
retro_tbel_1633, retro_tbel_4438, retro_tbel_845, retro_tbel_882,
Tarsius syrichta ENSTSYG000000089482 retrocopies
retro_tsyr_1612, retro_tsyr_372,
Tursiops truncatus ENSTTRG00000002345 1 retrocopy
retro_ttru_1500 ,


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