RetrogeneDB ID: retro_ttru_1303

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_109994:7870..8521(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BTG4
• Ensembl ID: ENSTTRG00000010435
• Aliases: None
• Description: B-cell translocation gene 4 [Source:HGNC Symbol;Acc:13862]

Sequence

>retro_ttru_1303
ATGATAGATGAAATTGCAACAGTTTTCTTTGTCATAAGGTTAAGCAAAAAAACATAAAATGAGTAAACAGCAAATAGAAG
ACTTTGTAGAACAGCAGATAACAATCTTGTTTGAAACATAAATAAGTCACTGGTACTTGAGCCCTTCAATAGGTAAGGTT
TCAGGTGTATCAAGGTAAGCAATTAGACTAAAGATTCCCTTCTATAAAGGGCTTGTGCTGAGAATGAAGTGATTCTTCTC
ACCTGGGACTTGCAAAGGAGCTGATCATATGTGTAGCTCACTTTGAAGTGTGCTGTAGGTATGATGAGAAAAACCATCCA
TTTGTAATTGCTACTTTTAAAGGCAGGTGGGAGGAATGGGAACTCTCCCAAAAATCAGTTACACTTTTAAGAGAGCTGCG
TTGGACTACTCCTATAGCATTTCCTCCAGTGAAAAAAGTTGTAACAAATAACCTCAGATAATTCCTAAAGTCAGCAATCC
AAAGAGTGTTTATCAGGTTGAAAACTTGAAAGAGTTCTTTCAGTCTTGGTTCCAAATCCCCTAGGAAAAGAATATGGTGA
TGGCCATATGGGCCTCCTAGGAAATGTTTATCATGTGTTGCATAAGAACACTATGGGTCATAGGTCTGCTGCTATACATA
GAGTGGAGAGG

Alignment

ORF - retro_ttru_1303 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.4 %
• Parental protein coverage: 98.67 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MRDEIATTVFFVTRL-AKKHDKLSKQQIEDFAEKLMTILFKTYRSHWHSDHPSKGQ-GFRCIRINNNQSK
          M.DEIAT.VFFV.RL.AKKH.K.SKQQIEDF.E...TILF.T..SHW....PS.G..GFRCI...N...K
Retrocopy MIDEIAT-VFFVIRL>AKKH-KMSKQQIEDFVEQQITILFET*ISHWYLS-PSIGK<GFRCIKVSN*-TK

Parental  DPILERACAESNV-DFSHLGLPKEMTIWVDPFEVCCRYGEKNHPFTIASFKDRWEEWELSQQ-ISDAVNR
          D..L.RACAE..V.D.SHLGL.KE..I.V..FEVCCRY.EKNHPF.IA.FK.RWEEWELSQ..IS....R
Retrocopy DSLL*RACAENEV<DSSHLGLAKELIICVAHFEVCCRYDEKNHPFVIATFKGRWEEWELSQK<ISYTFKR

Parental  ATLDYSSGTSSDEESCNKEPQIIPKVRNPKSIYQVENLKQPFQSWFHIPHKNNM-GDGRMGLLGNAYHAL
          A.LDYS...SS.E.SCNK.PQIIPKV.NPKS.YQVENLK..FQSWF.IP...NM.GDG.MGLLGN.YH.L
Retrocopy AALDYSYSISSSEKSCNK*PQIIPKVSNPKSVYQVENLKEFFQSWFQIP*EKNM<GDGHMGLLGNVYHVL

Parental  HKIPKGHRPAAGHRVDR
          HK...GHR.AA.HRV.R
Retrocopy HKNTMGHRSAAIHRVER

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_1303 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1303 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014210	2 retrocopies	retro_cfam_1324, retro_cfam_471,
Choloepus hoffmanni	ENSCHOG00000000032	1 retrocopy	retro_chof_2674,
Equus caballus	ENSECAG00000012564	1 retrocopy	retro_ecab_299,
Monodelphis domestica	ENSMODG00000014496	1 retrocopy	retro_mdom_1647,
Sus scrofa	ENSSSCG00000015020	1 retrocopy	retro_sscr_680,
Tursiops truncatus	ENSTTRG00000010435	1 retrocopy	retro_ttru_1303 ,