RetrogeneDB ID: retro_ttru_865

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_405:150060..151236(+)
• Located in intron of: ENSTTRG00000007480

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRT7
• Ensembl ID: ENSTTRG00000002820
• Aliases: None
• Description: keratin 7 [Source:HGNC Symbol;Acc:6445]

Sequence

>retro_ttru_865
GGCAGCAGCAGCAACTTCCGGGGTGGCCTGGGCACCAGCATGAGTCTGGCTCGAGGTTATGGCGGGGCCCTGGGTTTGGG
GGGCATCACAGCTGCCACAGTGAACCAGGGCCTGCTGAGCCCCCTCAAGCTGGAGGTGGACCCTAACATCTAGGCCATGC
GCACCCAGGAGAAGGAGCAGATCAAGACTCTGAACAACAAATCTGCCTCCTTCATCGACAAGGTGCGACACCTGGAGCAG
CAGAATAAGATTTTGGAGACCAAATGGAACCTCCTGCAGCAGCAGAAGACAGCCCGGAGCAACACAGACAACGTGTTTGA
AAGCTACATCAACAACCTCTGGCATCAGTTGGAAACCGTGGCCCAGGTGAAGCTGAAGCTGGAGGTGGATTTTGGCAAAA
TGCAGGGGCTGGTGGAGGACTTCAAGACCAAGTACAAGGAAGAGATCCAAAAGCACACAGACATGGAGAATGAATGTGTC
ATCACCAAGAAGGATGTGGATGAAGCTTACATGAACAAGGTAGAGCTGGAGTCCCACCTGGAAGGGCTGACTGAATAGAT
CAACTTCTACAGGCAACTGTATGGAGAGGAGATGCAGCCGCAGATTTCTGACACCTCCGTGGTGCTGTCCATGGACAACA
GCCACTCTCTGGACCTGGACGGCATCATCGCCGAGGTCAAGACCCAGTATGAGGATATCACCAACTGCAGCCAGGCCGAG
GCTGAGACCATGTACCAGATCAAGTATGAGGAGCTGCAGACATTGGCTGGGAAGCACGGGGATGACCTCCGTCACACGAA
GACAGAGATTTCTGAGATGAACCGGAACATCAACCGACTCCAGGCTGAGATTGAGGGCCTCAAAGGCCAGAGGGCTTCCC
TGGAGGCTGCCATTGCTGATGCTGAGCAGTGTGGTGAGCCGGCCATCAAGGATGCTCAGGCCAAGCTGGCTGAGCTGGAG
GCTGCTGTGAGAACTGCCACGCAGGACATGGCACAGCAGCTGCGTGAGTACCAGGAGCTGATGAACATCAAGCTGGCCCT
GGACGTGGAGATTGCCACCTACCACAAGCTGCTGGAGGGCAAGGCGAGCCGGCTGGAGTCTGGGATGCAGAACATGAGTA
TCCACACCAAGACCACCAGTGGGTATTCAGGTGGACTGACCTCAGCCTACGGGACC

Alignment

ORF - retro_ttru_865 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.5 %
• Parental protein coverage: 85.44 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGSSSSLYGLGASRPRVAARSSYGGPVG-AGIREVTINQSLLTPLQVNIDPSIQQVRQEEREQIKTLNNK
          G.SS....GLG.S.........YGG..G..GI...T.NQ.LL.PL....DP.I...R..E.EQIKTLNNK
Retrocopy GSSSNFRGGLGTS---MSLARGYGGALGLGGITAATVNQGLLSPLKLEVDPNI*AMRTQEKEQIKTLNNK

Parental  FASFIDKVRFLEQQNKLLETKWALLQEQKSTKRSCLPGIFEAQTAGLRKQLEALQLDGGRLEVELRNMQD
          .ASFIDKVR.LEQQNK.LETKW.LLQ.QK.T.RS.....FE.....L..QLE........LEV....MQ.
Retrocopy SASFIDKVRHLEQQNKILETKWNLLQQQK-TARSNTDNVFESYINNLWHQLETVAQVKLKLEVDFGKMQG

Parental  VVEDFKNKYEDEINRHTAAENEFVVLKKDVDVAYMNKVELEAKVDTLKDEINFLRTLYEEELKELQSKVS
          .VEDFK.KY..EI..HT..ENE.V..KKDVD.AYMNKVELE.....L...INF.R.LY.E...E.Q...S
Retrocopy LVEDFKTKYKEEIQKHTDMENECVITKKDVDEAYMNKVELESHLEGLTE*INFYRQLYGE---EMQPQIS

Parental  DTSVVLSMDNSRSLDLEGIIAEVKAQYEEIANRSRAEAEAWYQTKFETLQAQAGKHGDDLRRSRNEIAEL
          DTSVVLSMDNS.SLDL.GIIAEVK.QYE.I.N.S.AEAE..YQ.K.E.LQ..AGKHGDDLR....EI.E.
Retrocopy DTSVVLSMDNSHSLDLDGIIAEVKTQYEDITNCSQAEAETMYQIKYEELQTLAGKHGDDLRHTKTEISEM

Parental  NRAVQRLQAEIDSNKNQRAKLEAAVAEAEERGELAVKDARAKLVDLEEALQKAKQDMARQLREYQELMST
          NR...RLQAEI...K.QRA.LEAA.A.AE..GE.A.KDA.AKL..LE.A...A.QDMA.QLREYQELM..
Retrocopy NRNINRLQAEIEGLKGQRASLEAAIADAEQCGEPAIKDAQAKLAELEAAVRTATQDMAQQLREYQELMNI

Parental  KLALDIEIATYRKLLEGEESRMTGAGVGAVNISVVGSTGGAGSWLTFGGT
          KLALD.EIATY.KLLEG..SR....G.....I......G..G......GT
Retrocopy KLALDVEIATYHKLLEGKASRLE-SGMQNMSIHTKTTSGYSGGLTSAYGT

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_865 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_865 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 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017950	2 retrocopies	retro_cjac_419, retro_cjac_648,
Nomascus leucogenys	ENSNLEG00000017758	2 retrocopies	retro_nleu_593, retro_nleu_726,
Tursiops truncatus	ENSTTRG00000002820	2 retrocopies	retro_ttru_722, retro_ttru_865 ,