RetrogeneDB ID:

retro_ttru_1744

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_89546:10110..10812(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HNRNPH3
Ensembl ID:ENSTTRG00000013322
Aliases:None
Description:heterogeneous nuclear ribonucleoprotein H3 (2H9) [Source:HGNC Symbol;Acc:5043]


Retrocopy-Parental alignment summary:






>retro_ttru_1744
GGATTTTATGATCCACCAAGAAGATCGCTGGGCCAGCAACCGGGACCATATAATAGACCAATAGGAGGAAGAGGGGGTTA
TTATGGAGCTGGGCATGGAAGTTATGGAGGTTTTGATGACTATGGTGGCTATAATAATTATGGCTATGAAAATGATGGCT
TTGATGAGCGAATGAGAGATGGAAGAGGTATGGGAGGACATGGCTATGGTGGAGCTGGTGATGCAAGCTCAGGTTTTCAT
GGTGGTCATTTTGTACATATGAGGGGATTACCTTTCCATGCAACCAAAAGTGACATTGCTAATTTCTTCTCACCACTAAA
TCCAATCCGAGTGCATATTGATATTGGAGCTGATGGCAGAGCAACAGGAGAAGCAGATGTAGGGTTTCTGACACACGAAG
ATGCACTACCTGCCATGTCTAAAGATAAGAATAACATGCAACATCGATACATTGAACTCTTCTTGAATTCAACTCCTGGA
GGTGGCTCTGGAATGGGAGGTTCTGGAATGGGAGTTTATGGCAGAGATGGAATGGATAATCAGGGAGGCTATGGATCTGT
TGGAAGAATGGGAATGGGGAACAATTACAGTGGAGGATATGGTACTCCTGATGGTTTGGGTGGCTATGGCTGTGGTGGTG
GAGGCAGTGGCGGTTACTATGGGCAAGGTGGCATGAGTGGAGGTGGATGGCGTGGGATGTAC

ORF - retro_ttru_1744 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.72 %
Parental protein coverage: 67.92 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGPYDRPIGGRGGYYGAGRGSMYDRMRRGGDGYDGGYGGFDDYGGYNNYGYGNDGFDDRMRDGRGMGGHGY
G.YD.P....G...G........R....G.G..G.YGGFDD................RMRDGRGMGGHGY
RetrocopyGFYDPPRRSLGQQPGPYNRPIGGRGGYYGAGH-GSYGGFDDXXXXXXXXXXXXXXXERMRDGRGMGGHGY
ParentalGGAGDASSGFHGGHFVHMRGLPFRATENDIANFFSPLNPIRVHIDIGADGRATGEADVEFVTHEDAVAAM
GGAGDASSGFHGGHFVHMRGLPF.AT..DIANFFSPLNPIRVHIDIGADGRATGEADV.F.THEDA..AM
RetrocopyGGAGDASSGFHGGHFVHMRGLPFHATKSDIANFFSPLNPIRVHIDIGADGRATGEADVGFLTHEDALPAM
ParentalSKDKNNMQHRYIELFLNSTPGGGSGMGGSGMGAYGRDGMDNQGGYGSVGRMGMGNNYSGGYGTPDGLGGY
SKDKNNMQHRYIELFLNSTPGGGSGMGGSGMG.YGRDGMDNQGGYGSVGRMGMGNNYSGGYGTPDGLGGY
RetrocopySKDKNNMQHRYIELFLNSTPGGGSGMGGSGMGVYGRDGMDNQGGYGSVGRMGMGNNYSGGYGTPDGLGGY
ParentalGRGGGGSGGYYGQGGMSGGGWRGMY
G.GGGGSGGYYGQGGMSGGGWRGMY
RetrocopyGCGGGGSGGYYGQGGMSGGGWRGMY

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_1744 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1744 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 11 parental genes, and 16 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000103651 retrocopy
Ailuropoda melanoleuca ENSAMEG000000180641 retrocopy
Bos taurus ENSBTAG000000143162 retrocopies
Callithrix jacchus ENSCJAG000000191542 retrocopies
Equus caballus ENSECAG000000071901 retrocopy
Gallus gallus ENSGALG000000039471 retrocopy
Macropus eugenii ENSMEUG000000131391 retrocopy
Mustela putorius furoENSMPUG000000119971 retrocopy
Oryctolagus cuniculus ENSOCUG000000044433 retrocopies
Tursiops truncatus ENSTTRG00000013322 2 retrocopies
retro_ttru_1744 , retro_ttru_1766,
Vicugna pacos ENSVPAG000000118141 retrocopy



Copyright © RetrogeneDB 2014-2017