RetrogeneDB ID: retro_ttru_756

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3286:15474..15991(-)
• Located in intron of: ENSTTRG00000015078

Retrocopy information

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

Parental gene information

• Parental gene symbol: CIRBP
• Ensembl ID: ENSTTRG00000011049
• Aliases: None
• Description: cold inducible RNA binding protein [Source:HGNC Symbol;Acc:1982]

Sequence

>retro_ttru_756
ATGGCATCACATGAAGGCAAGCTGTTCGTCGGAGGGCTGAGTTTTGACACCAACGAGCAGTCACTGGAGCAGGTCTTCTC
AAAATATGAGACAGATCTCAGAAGTGGTGGTCGTGAAAGACAGGGAGACCCAGCGATTGAGGGGCTTTGGGTTTGTCACC
TTTGAGAACATCAACGATGCCAAGGACGCCATGATGGCCATGAATGGGAAGTCTGTGGATGGGGGGCAGATCTGGGTCGA
CCAGGCTGGCAAGTCGTCTGGTAACCAATCCCGCGGGTACCGAGTTGGCTCTGCTGGGGGCCAGGGCTTTTTCCACGGGG
GCCGAGGCCGGGGCCGTGGGTTCTCCAGAGGAGGAGGGGACCGCGGCTACAGAGGGAGCTGGTTCGAGTCCAGGAGTGGG
GGCTATGGAGGCTCCAGAGACTACTACAGCAGCTGGAGTCAGGGTGGCAGCTGCGGTGACCGGAGCTCGGGCGGGTCCTA
CAGAGACAGCTGCAACAGTTATGCTACACACAACGAG

Alignment

ORF - retro_ttru_756 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.02 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MASDEGKLFVGGLSFDTNEQSLEQVFSKYG-QISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNG
          MAS.EGKLFVGGLSFDTNEQSLEQVFSKY..QISEVVVVKDRETQR.RGFGFVTFENI.DAKDAMMAMNG
Retrocopy MASHEGKLFVGGLSFDTNEQSLEQVFSKYE>QISEVVVVKDRETQRLRGFGFVTFENINDAKDAMMAMNG

Parental  KSVDGRQIRVDQAGKSSDNRSRGYRGGSVGGRGFFRGGRGRGRGFSRGGGDRGYGGSRFESRSGGYGGSR
          KSVDG.QI.VDQAGKSS.N.SRGYR.GS.GG.GFF.GGRGRGRGFSRGGGDRGY.GS.FESRSGGYGGSR
Retrocopy KSVDGGQIWVDQAGKSSGNQSRGYRVGSAGGQGFFHGGRGRGRGFSRGGGDRGYRGSWFESRSGGYGGSR

Parental  DYYSSRSQSGSCGDRSSGGSYRDSYDSYATHNE
          DYYSS.SQ.GSCGDRSSGGSYRDS..SYATHNE
Retrocopy DYYSSWSQGGSCGDRSSGGSYRDSCNSYATHNE

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_756 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_756 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 6 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Gadus morhua	ENSGMOG00000012137	1 retrocopy	retro_gmor_4,
Myotis lucifugus	ENSMLUG00000015007	1 retrocopy	retro_mluc_1975,
Macaca mulatta	ENSMMUG00000022101	4 retrocopies	retro_mmul_1101, retro_mmul_2077, retro_mmul_510, retro_mmul_677,
Tursiops truncatus	ENSTTRG00000007322	1 retrocopy	retro_ttru_1450,
Tursiops truncatus	ENSTTRG00000008587	3 retrocopies	retro_ttru_1898, retro_ttru_928, retro_ttru_938,
Tursiops truncatus	ENSTTRG00000011049	1 retrocopy	retro_ttru_756 ,