RetrogeneDB ID:

retro_ttru_1251

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_108727:71007..71651(-)
Located in intron of:ENSTTRG00000012176
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HNRNPA1L2
Ensembl ID:ENSTTRG00000004505
Aliases:None
Description:heterogeneous nuclear ribonucleoprotein A1-like 2 [Source:HGNC Symbol;Acc:27067]


Retrocopy-Parental alignment summary:






>retro_ttru_1251
GAGGTTGATGCCGCCATGGCCTGCAAGACCTCATTCAATTGATGGGACAGTAGTTGAGCCAAAACGTGCTGTTGCAAGAG
AGGACTCTGGAAAGCCAGGGGCTCATGTCACTGTGAAGAAGCTATCTGTAGATGGAATTAAAGAAGATACTGAGGAACAT
CATCTTAGAGATTACTTTGAGGAATATGGAAAAATTGAGACCATTGAGATAATTACGGATAGGCAGTCTGGAAAGAAAAG
AGGCTTTGGGTTTGTTACTTTTGATGACTGTGATCCTGTGGATAAGACTGTGTCGCAGAAATACCATACTATCAATGGTC
ATAATGCAGAAGTAAGAAAGGCTTTCTTTGTCTAGACAAGAAATGCAAGAAGTCCAAAGTTCTAGAAGTGGAAGAGGAGG
CCACTTTGGTTCTGGAGATTCTCGTGGTGATGGTGGCAGAAATTTTGGACCAGGACCAGGAAGTAACTTCAGAGGAGGAT
CTGATGGATATGGAAGTGGTCGTGGATTTGGGGATGGCTATAATGGGTATGGAGGAGGGCCCGGAGGTGGGAATTTTGAA
GGTAGCCCTGGTTATGGAGGAGGAAGAGGAGGATATGGTGGTGGAGGACCTGGATATGGCAACCAGGGTGGGGGCTACGG
AGGT

ORF - retro_ttru_1251 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.23 %
Parental protein coverage: 59.29 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalEVDAAMN-ARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIE
EVDAAM..ARPH..DG.VVEPKRAV.REDS..PGAH.TVKK..V.GIKEDTEEHHLRDYFE.YGKIE.IE
RetrocopyEVDAAMA>ARPHSIDGTVVEPKRAVAREDSGKPGAHVTVKKLSVDGIKEDTEEHHLRDYFEEYGKIETIE
ParentalIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKAL-SKQEMASASSSQRGRSGSGNFGG
I.TDR.SGKKRGF.FVTFDD.D.VDK.V.QKYHT.NGHN.EVRKA............S.R...G.....G
RetrocopyIITDRQSGKKRGFGFVTFDDCDPVDKTVSQKYHTINGHNAEVRKAF>LSRQEMQEVQSSRSGRGGHFGSG
ParentalGRGGGFGGNDNFGRGGNFSGRGGFGGSRGGGGYGGSGDGYNGFGNDGGYGGG----GPGYSGGSRGYGSG
...G..G.N...G.G.NF..RGG..G...G.G.G...DGYNG.G..GG.GGG.....PGY.GG..GYG.G
RetrocopyDSRGDGGRNFGPGPGSNF--RGGSDGYGSGRGFG---DGYNGYG--GGPGGGNFEGSPGYGGGRGGYGGG
ParentalGQGYGNQGSGYGG
G.GYGNQG.GYGG
RetrocopyGPGYGNQGGGYGG

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_1251 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1251 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 12 parental genes, and 61 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG000000092287 retrocopies
Loxodonta africana ENSLAFG000000295875 retrocopies
Mustela putorius furoENSMPUG000000046201 retrocopy
Mustela putorius furoENSMPUG000000057352 retrocopies
Oryctolagus cuniculus ENSOCUG000000133501 retrocopy
Oreochromis niloticus ENSONIG000000122481 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000065518 retrocopies
Tursiops truncatus ENSTTRG000000007093 retrocopies
Tursiops truncatus ENSTTRG000000017932 retrocopies
Tursiops truncatus ENSTTRG00000004505 27 retrocopies
Tursiops truncatus ENSTTRG000000075921 retrocopy
Tursiops truncatus ENSTTRG000000142253 retrocopies



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