RetrogeneDB ID: retro_ttru_1077

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_102192:77811..78855(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: METAP1
• Ensembl ID: ENSTTRG00000002515
• Aliases: None
• Description: methionyl aminopeptidase 1 [Source:HGNC Symbol;Acc:15789]

Sequence

>retro_ttru_1077
GAATGTTTTCAAGGAAGTTGGGTTACTCACAAGTTACTACATATGAAAGTAAAAGATGAAAAGGCCAAGCAAGAAGTGTC
TTCCTGGACTGTGGAAGGGGATATCAACACTGACCCATGGGCATGTTATTGATATACTAGTAAACTCAGACCACATTATC
CACTGATATCAAGGCCAGTGCCAAGTCATAGTCCAAGACCAGATTATGCTGATCACCCTTTAGGAATGTCTGAATCTGAG
CAGGCTCTTAAAGGTACCTCTCAAGTTAAGTTACTCTCATCTGAAGATATAGAAGGGATGCTACTGCTATGTAGGCTTGC
TAGAGAAGACTATGTGGACATTGATGCTGGGGTGATTAAACCAGGTGTAACTACTGAAGAAATAGATCATGCTGTACACT
TAGCATGCATTGCAAGAAATTGCTATCCTTCTCCCCTGAATTATTATAATTTTCCAAAGTCTTGTTGTACTTCAGTGAAT
GAAGTGATCTGCCATGGAATTCCAGACAGATGGCCCTTGCAAGAAGGTGATATTGTTAATGTGAACATCACTCTTTATCA
CAATGTTTATCATGAGGACCTGAATGAGATGTTTTTTGTTTGAGACGTGGATGAGCAAGCATGGAAACTTGTTCAGACCG
CGTGTGAGTGCCTGATGCAAACCACTGATGCAGTGAAACTTGGTGTTCAATACAGAGAATTGGGAAACATTATCCAGAAG
CATGACCAAGCAAATGAATTTTCAGTTGTTCAAAGCTATTGTGGGCATGGAATCCACAAACTTTTTCATACAGCCCTCAA
TGCACCTCACTAGGCCAAAAATAAAGCAGCTGGAGTGATGAAGGCCAGCCACATATTTACAATTGAGCCAATAATTTGTG
AAGGTGGAAGGCAGGATGAAACCTGGATGGATGGCTGGACAGCAGTGATGAGAGATGGGAAGCTGTCTGCCCAGTTTGAG
CACAACCTGCTGGTCACGGACACTAGCTATGAAATCCTAACCCCGTGACTCGATAGCTCGTGGCCTCATTTCATGTCCCA
ATTT

Alignment

ORF - retro_ttru_1077 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.57 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ECFKGSWATHKLLHKKAKDEKAKRESVSPWTVEGDINTDPWAGYRYTGKLRPHYPLMPTRPVPSYIQRPD
          ECF.GSW.THKLLH.K.KDEKAK.E.VS.WTVEGDINTDPWA.Y.YT.KLRPHYPL...RPVPS...RPD
Retrocopy ECFQGSWVTHKLLHMKVKDEKAKQE-VSSWTVEGDINTDPWACY*YTSKLRPHYPLI-SRPVPSHSPRPD

Parental  YADHPLGMSESEQALKGTSQIKLLSSEDIEGMRLVCRLARE-VLDIAADMIKPGVTTEEIDHAVHLACIA
          YADHPLGMSESEQALKGTSQ.KLLSSEDIEGM.L.CRLARE...DI.A..IKPGVTTEEIDHAVHLACIA
Retrocopy YADHPLGMSESEQALKGTSQVKLLSSEDIEGMLLLCRLAREDYVDIDAGVIKPGVTTEEIDHAVHLACIA

Parental  RNCYPSPLNYYNFPKSCCTSVNEVICHGIPDRRPLQEGDIVNVDITLYRNGYHGDLNETFFVGDVDEGAR
          RNCYPSPLNYYNFPKSCCTSVNEVICHGIPDR.PLQEGDIVNV.ITLY.N.YH.DLNE.FFV.DVDE.A.
Retrocopy RNCYPSPLNYYNFPKSCCTSVNEVICHGIPDRWPLQEGDIVNVNITLYHNVYHEDLNEMFFV*DVDEQAW

Parental  KLVQTTYECLMQAIDAVKPGVRYRELGNIIQKHAQANGFSVVRSYCGHGIHKLFHTAPNVPHYAKNKAVG
          KLVQT..ECLMQ..DAVK.GV.YRELGNIIQKH.QAN.FSVV.SYCGHGIHKLFHTA.N.PH.AKNKA.G
Retrocopy KLVQTACECLMQTTDAVKLGVQYRELGNIIQKHDQANEFSVVQSYCGHGIHKLFHTALNAPH*AKNKAAG

Parental  VMKAGHVFTIEPMICEGGWQDETWPDGWTAVTRDGKRSAQFEHTLLVTDTGCEILTRRLDSARPHFMSQF
          VMKA.H.FTIEP.ICEGG.QDETW.DGWTAV.RDGK.SAQFEH.LLVTDT..EILT..LDS..PHFMSQF
Retrocopy VMKASHIFTIEPIICEGGRQDETWMDGWTAVMRDGKLSAQFEHNLLVTDTSYEILTP*LDSSWPHFMSQF

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_1077 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1077 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000001520	1 retrocopy	retro_ggor_789,
Otolemur garnettii	ENSOGAG00000015636	1 retrocopy	retro_ogar_288,
Tarsius syrichta	ENSTSYG00000004984	2 retrocopies	retro_tsyr_1836, retro_tsyr_480,
Tursiops truncatus	ENSTTRG00000002515	1 retrocopy	retro_ttru_1077 ,