RetrogeneDB ID: retro_ttru_1262

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_108957:164933..165570(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MTFR1L
• Ensembl ID: ENSTTRG00000012479
• Aliases: None
• Description: mitochondrial fission regulator 1-like [Source:HGNC Symbol;Acc:28836]

Sequence

>retro_ttru_1262
GTGACCGTCTCAGTCTGGCAAAACAAGCCGCAGGGGGCTGTTCGAAGTGTAATGAGGATGGGTACCAACCTGTGTCTGAA
GCCATGTCCCTCAGAATCCTTGGAGGTGCTGCCCAACATCTCTGACCTGGGTCTGAGGGCTGTGCCCCGAGTCCCTACCC
TGGCTCACATCGCCTGGATGCTATAGATGAAGCAGAGCCTTCTGCCGGGGTCAGGAGCATACATGGCCCCTGAGGAGCCC
CCGGAAGCCCAGCCCTCTGATTGTCATGCAGCGCAATGCCTCAGGGCCCAGCCTGCAGGAGATGGAGAAGAGGCTCCTGG
CCTCGAAGAAGTCCTGCCGGCCCTAAGCCGCCTACGGAGCTGCAGGATGAGCTGCGCCACCTGCGCAGCTAGATGGCTAA
AATCGTGGCGTCTGATGCAGTTTCGGCTTCATTAACAACAGATTTCTTACCTCCAGAAAGTTCAAAGGTCTCTCCCCGCT
TACCTTGTTTTGGATCTTCATTCCACTCTACAACTTCCTTCGCCGTTAGTGACATCGCCGGGGAGACCCAGGTAGACTCC
CTGAGCTTCCATCAGTCCTCCTGATTTGTTCTGCCAGCCCTGATATTTGCAAACCAGAACACAAAGCTACTGTGTCT

Alignment

ORF - retro_ttru_1262 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.52 %
• Parental protein coverage: 72.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  LTIPIWQNKPHGAARSVVRRIGTNLPLKPCPRASFETLPNISDLCLRDVPPVPTLADIAWI-AADEEETY
          .T...WQNKP.GA.RSV.R..GTNL.LKPCP..S.E.LPNISDL.LR.VP.VPTLA.IAW..A.DE.E..
Retrocopy VTVSVWQNKPQGAVRSVMR-MGTNLCLKPCPSESLEVLPNISDLGLRAVPRVPTLAHIAWM<AIDEAEPS

Parental  ARVRY-DTRPLRHTWKPSPLIVIQRNASVPNLR-GSEERLLALKKPALPALSRT-TELQEELSHLRSQIA
          A.VR...T.PLR...KPSPLIV.QRNAS.P.L..G..E....L....LPALSR..TELQ.EL.HLRS..A
Retrocopy AGVRS<HTWPLRSPRKPSPLIVMQRNASGPSLQ<GDGEEAPGLEE-VLPALSRL<TELQDELRHLRS*MA

Parental  KIVAADAASASLTPDFLSPGSSNVSSPLPCFGSSFHSTTSFVISDITEETEVE-VPELPSVPLLCSASPE
          KIVA.DA.SASLT.DFL.P.SS.VS..LPCFGSSFHSTTSF..SDI..ET.V...PELPSV.L.CSASP.
Retrocopy KIVASDAVSASLTTDFLPPESSKVSPRLPCFGSSFHSTTSFAVSDIAGETQVD<LPELPSVLLICSASPD

Parental  CCKPEHKATCS
          .CKPEHKAT.S
Retrocopy ICKPEHKATVS

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_1262 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1262 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000012794	1 retrocopy	retro_fcat_667,
Macropus eugenii	ENSMEUG00000016175	4 retrocopies	retro_meug_1948, retro_meug_2133, retro_meug_359, retro_meug_557,
Myotis lucifugus	ENSMLUG00000010738	1 retrocopy	retro_mluc_338,
Tursiops truncatus	ENSTTRG00000012479	2 retrocopies	retro_ttru_1262 , retro_ttru_327,
Vicugna pacos	ENSVPAG00000004314	1 retrocopy	retro_vpac_458,