RetrogeneDB ID: retro_ttru_448

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2327:151470..151916(-)
• Located in intron of: ENSTTRG00000011516

Retrocopy information

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

Parental gene information

• Parental gene symbol: PIR
• Ensembl ID: ENSTTRG00000006770
• Aliases: None
• Description: pirin (iron-binding nuclear protein) [Source:HGNC Symbol;Acc:30048]

Sequence

>retro_ttru_448
GCGGAGATGCCTTGCTCGGAGGAGTCAGTCCATGGCCTACAGCTGTGGGTTAATTTGAGGAGCTCACAGAAGATGGTGGA
GCCTTGGTACCAGGAAGTAAAAAGCAGCAAAATCCCTAAACCCATAAGGATGGTGTTACTGTTGCTGTCATTTCTGGAGA
ATCCCTGGGAATCAAGTCCAAGATTTATACTTACACACCAACTTTATATTTGGAGTTAAGATTGGACCAAGGAGCAAAGC
ATTCCCAGCCTATTCCTAAAGGGTGATCAAGCTTCATTTATACCATATCTGGAAACGTGCATATTGGACCTAACACCCAA
CAAAAGATAGAACCTCATCACACAGCTGTGCTGGGGGAAGGTGACAGTGTCCAGGTGGAGAACAAGGATCCTGAGAGAAG
CCACTTTGTCCTAATTCCTGAGGAGCCATTAAGAGAACCAGTTGTT

Alignment

ORF - retro_ttru_448 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.44 %
• Parental protein coverage: 51.9 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AEMPCSEEPVHGLQLWVNLRSPQKMVEPRYQELKSSEIPKP-SKEAVTVAVISGEALGVKSKSYTHTPTL
          AEMPCSEE.VHGLQLWVNLRS.QKMVEP.YQE.KSS.IPKP..K..VTVAVISGE.LG.KSK.YT.TPTL
Retrocopy AEMPCSEESVHGLQLWVNLRSSQKMVEPWYQEVKSSKIPKP<HKDGVTVAVISGESLGIKSKIYTYTPTL

Parental  YLDFRLGQGAKHSQPIPKGWTSFIYTISGNVYIGPDDSQQKIEPHHTAVLGEGDSVQVENKDPERNHFVL
          YL..RL.QGAKHSQPIPKG..SFIYTISGNV.IGP...QQKIEPHHTAVLGEGDSVQVENKDPER.HFVL
Retrocopy YLELRLDQGAKHSQPIPKG*SSFIYTISGNVHIGP-NTQQKIEPHHTAVLGEGDSVQVENKDPERSHFVL

Parental  IAGEPLREPVV
          I..EPLREPVV
Retrocopy IPEEPLREPVV

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_448 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_448 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009477	1 retrocopy	retro_btau_298,
Felis catus	ENSFCAG00000010486	1 retrocopy	retro_fcat_779,
Otolemur garnettii	ENSOGAG00000003304	2 retrocopies	retro_ogar_1073, retro_ogar_1118,
Tupaia belangeri	ENSTBEG00000008256	1 retrocopy	retro_tbel_1669,
Tursiops truncatus	ENSTTRG00000006770	1 retrocopy	retro_ttru_448 ,