RetrogeneDB ID:

retro_ttru_143

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_1365:190269..190602(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SKA2
Ensembl ID:ENSTTRG00000017196
Aliases:None
Description:spindle and kinetochore associated complex subunit 2 [Source:HGNC Symbol;Acc:28006]


Retrocopy-Parental alignment summary:






>retro_ttru_143
ATGTTCCAGAAAGCTGACTCTGATCCGGATTACATTCAGCACAGGTTGGAATAGGAAATCAAGACTAATTATCCTGATTC
GGCAGGCAAGAAAAATCCAGTTACACTCTTAAAGGAATTGTCAGCAATAAAGTCTCGATATCAAACTCTGCATGCATGCT
TTCAACCAACTGCTGTGGAGCACAAAGAGACTAAGAGCCGCATTTGTGCTACTTTCAATAAGACTATGACCTTGATACAA
GAACTACAAAAGCAAACAGACCTGAAGCTCTTACCACTGACTGAAGAAGAGAAAACTGCGGCCGAGCAATTAAGAGCTCA
CATATCAGACTTA

ORF - retro_ttru_143 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.09 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 1
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMFIKADSDLDYFQYRLHYEIKTNYPDS-GKKNPVTLLKELSAIKSRYQTLHARFKPIAVEHKETKSRICA
MF.KADSD.DY.Q.RL..EIKTNYPDS.GKKNPVTLLKELSAIKSRYQTLHA.F.P.AVEHKETKSRICA
RetrocopyMFQKADSDPDYIQHRLE*EIKTNYPDSAGKKNPVTLLKELSAIKSRYQTLHACFQPTAVEHKETKSRICA
ParentalTFNKTMTLIQELQKQTDLKLLPLTEEEKTAAEQLRAHMSDL
TFNKTMTLIQELQKQTDLKLLPLTEEEKTAAEQLRAH.SDL
RetrocopyTFNKTMTLIQELQKQTDLKLLPLTEEEKTAAEQLRAHISDL

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_143 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_143 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 18 parental genes, and 32 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000216802 retrocopies
retro_btau_310, retro_btau_945,
Canis familiaris ENSCAFG000000292331 retrocopy
retro_cfam_766,
Cavia porcellus ENSCPOG000000060511 retrocopy
retro_cpor_542,
Dipodomys ordii ENSDORG000000107682 retrocopies
retro_dord_103, retro_dord_281,
Equus caballus ENSECAG000000150071 retrocopy
retro_ecab_987,
Felis catus ENSFCAG000000228021 retrocopy
retro_fcat_1111,
Homo sapiens ENSG000001826281 retrocopy
retro_hsap_4214,
Loxodonta africana ENSLAFG000000034051 retrocopy
retro_lafr_1215,
Myotis lucifugus ENSMLUG000000109421 retrocopy
retro_mluc_83,
Monodelphis domestica ENSMODG000000146191 retrocopy
retro_mdom_347,
Mustela putorius furoENSMPUG000000152411 retrocopy
retro_mputfur_1435,
Mus musculus ENSMUSG000000204922 retrocopies
retro_mmus_370, retro_mmus_778,
Otolemur garnettii ENSOGAG000000260724 retrocopies
retro_ogar_1882, retro_ogar_2937, retro_ogar_3032, retro_ogar_907,
Rattus norvegicus ENSRNOG000000259813 retrocopies
retro_rnor_1606, retro_rnor_523, retro_rnor_733,
Sorex araneus ENSSARG000000111282 retrocopies
retro_sara_60, retro_sara_662,
Ictidomys tridecemlineatus ENSSTOG000000241694 retrocopies
retro_itri_1115, retro_itri_1275, retro_itri_1434, retro_itri_725,
Tarsius syrichta ENSTSYG000000061583 retrocopies
retro_tsyr_1620, retro_tsyr_2034, retro_tsyr_748,
Tursiops truncatus ENSTTRG00000017196 1 retrocopy
retro_ttru_143 ,


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