RetrogeneDB ID: retro_ttru_1031

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_100480:4583..5138(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000012823
• Aliases: None
• Description: None

Sequence

>retro_ttru_1031
ATGGTGAAGGTGGGAAACAATTTCACGGAGAAGGGCACCAAGCAGCCGCTGCTGGAGGATGGCTTCGACACCACCCCCCT
GATGATGCCCCTTGATGTCAATCAGCTGCAGTTCCCGCCCCTGGATAAGGTGGTCGTGAAAACTAAGACTGAAAATGAAC
CTGACTGAAATAAAGGCAAAGCACGTCCTCCCAAGATAGCCAAGTTCACTGTCAGCATCACTGAGGGTGTTACCAAGAGG
TTCAAGGTGTCTGTGCTGGTCTTCTTTGCCCTGGTCTTTCTCACCTGTGTCATCTTCCTGGTCGTCTACAAGATGTACAA
CTATGATCATGCCTGTCCCGATGGCTTCACCCTCAAGAACACCCAGTGCATCCCAGGAGGCTTGGAGAGCTACCATGCGG
AGCAAGACTCCAACGTCCGGGAGAAATTTCACACCGTCATCAACCACCACAACCTGGCCAAGCAGAGCATCACCCACTCG
GTGTCGCCGTGGATGTCAGTTCTGTCCGAAGAGAAGCTCTCAGAGCAGGAGACTGAGGCTGCTGAGAAATCTGCT

Alignment

ORF - retro_ttru_1031 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.03 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVKLGNNFAEKGTKQPLLEDGFDTIPLMTPLDVNQLQFPPPDKVVVKTKTEYEPDRKKGKTRPPKIAEFT
          MVK.GNNF.EKGTKQPLLEDGFDT.PLM.PLDVNQLQFPP.DKVVVKTKTE.EPD..KGK.RPPKIA.FT
Retrocopy MVKVGNNFTEKGTKQPLLEDGFDTTPLMMPLDVNQLQFPPLDKVVVKTKTENEPD*NKGKARPPKIAKFT

Parental  VSITEGVTERFKVSVLVLFALAFLTCVVFLVVYKVYKYDRACPDGFVLKNTQCIPEGLESYYAEQDSNAR
          VSITEGVT.RFKVSVLV.FAL.FLTCV.FLVVYK.Y.YD.ACPDGF.LKNTQCIP.GLESY.AEQDSN.R
Retrocopy VSITEGVTKRFKVSVLVFFALVFLTCVIFLVVYKMYNYDHACPDGFTLKNTQCIPGGLESYHAEQDSNVR

Parental  EKFYTVINHYNLAKQSITRSVSPWMSVLSEEKLSEQETEAAEKSA
          EKF.TVINH.NLAKQSIT.SVSPWMSVLSEEKLSEQETEAAEKSA
Retrocopy EKFHTVINHHNLAKQSITHSVSPWMSVLSEEKLSEQETEAAEKSA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_1031 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1031 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000000128	1 retrocopy	retro_cjac_1799,
Tursiops truncatus	ENSTTRG00000012823	1 retrocopy	retro_ttru_1031 ,