RetrogeneDB ID: retro_ttru_70

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1118:6520..7411(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: G3BP1
• Ensembl ID: ENSTTRG00000009072
• Aliases: None
• Description: GTPase activating protein (SH3 domain) binding protein 1 [Source:HGNC Symbol;Acc:30292]

Sequence

>retro_ttru_70
ATGGTTATGGAGAAGCCTAGTCCTCTGCTGGTCAGGTGAGAATTTGTGAGACAGTATTACACACTGCTGAACCAGGCCGC
AGACATGCTACACAAATTTTATGGAAAGAACTCTTCTTATGTCCATGGGGGATTGGATTCAAATGGAAAGCCAGCAGATG
TGGTCTACGGACAGAAAGAAATCCATAGGAAAGTGATGTCACAAAACTTCACGAATTGCCGCACTAAGATCCGTCATGTC
GACACTCATGCCACTCTGAATGACGGTGTGGTGGTCCAGGTGATAGGCTTGCTCTCTAATAACAACCAGGCTTTGAGGAC
ATTCATGAGACCTTTGTCCTTGCTCCTGAGGGCTCTGCTGCAAATAATTTTTATGTTCACAATGATATCTTCAGATACCA
AGATGAGGTCTTTGGTGGCTTAGTCACTGAGCCTCAGGAAGAATCTGAAGAAGAAGCAGAGGAACCTGAAGAAAGACAGC
AGACCACTGAGGTGGTACCTGATGATTCTGGAACTTTCTATGATCCAACTGTCAGCAATGACTTAGAAGGACATTTAGAA
GAACCTGTTGCTGAACCAGAGCCTGATCCTGAACCAGAACCGGAGCAAGAACCTGCGTCTGTGGTCCAAGAGGAAATGCC
TGAGTGTATTGGAAGAAACTACTCCTAAGAATGCTCAGAAGAGTTCTTCTCCAGCGCCTGCAGACATAGCCCAGACAGTG
CAGAAGGACTTGAGAACCTTTTCTTGGACATCTGTGACCAGCAAGAACCTTCCACCCAGTGGAGCTGTTCCAGTTACTGG
GATACCACCTCATGCTGTTAAACTACCAGCTTCACAGCCTCGTCCAGAGTCTAAGCCTGAATCTCAGATTCCACCCTGCA
GAGGCCTCAGA

Alignment

ORF - retro_ttru_70 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.33 %
• Parental protein coverage: 64.09 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MVMEKPSPLLVGREFVRQYYTLLNQAPDMLHRFYGKNSSYVHGGLDSNGKPADAVYGQKEIHRKVMSQNF
          MVMEKPSPLLV..EFVRQYYTLLNQA.DMLH.FYGKNSSYVHGGLDSNGKPAD.VYGQKEIHRKVMSQNF
Retrocopy MVMEKPSPLLVR*EFVRQYYTLLNQAADMLHKFYGKNSSYVHGGLDSNGKPADVVYGQKEIHRKVMSQNF

Parental  TNCHTKIRHVDAHATLNDGVVVQVMGLLSNNNQALRRFM-QTFVLAPEGSVANKFYVHNDIFRYQDEVFG
          TNC.TKIRHVD.HATLNDGVVVQV.GLLSNNNQALR.FM..TFVLAPEGS.AN.FYVHNDIFRYQDEVFG
Retrocopy TNCRTKIRHVDTHATLNDGVVVQVIGLLSNNNQALRTFM<ETFVLAPEGSAANNFYVHNDIFRYQDEVFG

Parental  GFVTEPQEESEEEVEEPEERQQTPEVVPDDSGTFYDQTVSNDLEEHLEEPVAEPEPDPEPEPEQEPVSEV
          G.VTEPQE................EVVPDDSGTFYD.TVSNDLE.HL...............EQEP.S.V
Retrocopy GLVTEPQEXXXXXXXXXXXXXXXTEVVPDDSGTFYDPTVSNDLEGHLXXXXXXXXXXXXXXXEQEPASVV

Parental  QEEKSEPV-LEETAPEDAQKSSSPAPADIAQTVQEDLRTFSWASVTSKNLPPSGAVPVTGIPPHVVKVPA
          QEE..E....E.T.......SS.PAPADIAQTVQ.DLRTFSW.SVTSKNLPPSGAVPVTGIPPH.VK.PA
Retrocopy QEEMPECI>EETTPKNAQKSSS-PAPADIAQTVQKDLRTFSWTSVTSKNLPPSGAVPVTGIPPHAVKLPA

Parental  SQPRPESKPESQIPPQRPQR
          SQPRPESKPESQIPP.R..R
Retrocopy SQPRPESKPESQIPPCRGLR

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_70 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_70 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 7 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000006626	2 retrocopies	retro_cpor_1119, retro_cpor_464,
Dasypus novemcinctus	ENSDNOG00000018758	3 retrocopies	retro_dnov_1492, retro_dnov_1632, retro_dnov_526,
Echinops telfairi	ENSETEG00000017447	1 retrocopy	retro_etel_1488,
Oryctolagus cuniculus	ENSOCUG00000022143	1 retrocopy	retro_ocun_1352,
Rattus norvegicus	ENSRNOG00000013186	1 retrocopy	retro_rnor_1282,
Tupaia belangeri	ENSTBEG00000004386	12 retrocopies	retro_tbel_2177, retro_tbel_2295, retro_tbel_2296, retro_tbel_2327, retro_tbel_2352, retro_tbel_2460, retro_tbel_2461, retro_tbel_3889, retro_tbel_3928, retro_tbel_4180, retro_tbel_4190, retro_tbel_4246,
Tursiops truncatus	ENSTTRG00000009072	1 retrocopy	retro_ttru_70 ,