RetrogeneDB ID: retro_ttru_722

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3175:855307..856493(-)
• Located in intron of: None

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_722
GGCAGCAGCAGCAGCTTCCGGGGCGTCCTGGGCAGCAGCATGAGTCTGGCTGCAGGTTACAGTGGGGCCCCAGGTCTGGG
GGACATCACAGCTGTCACGGTGAACCAGAGCCTGCTGAGCCCCCTCAAGCTGGAGGTGGACCCCGACATCCAGGCCGTGC
GCACCCAGGAGAAGGAGCAGATCAAGATCCTGAACAGCAAGTTTGCCTCCTTCGTCGACAAGGTACGGCACCTGGAGCAG
CAGAACAAGATTTTGGAGACCAAATGGAACCTCCTGCAGCAGCAGAAGACAGTCCGGAGCAACATAGACAACATGTCTGA
GAGCTACATCAACAACCTCTGGCGGCAGCTGGAAAGCGTGGCCCAGGAGAAGCTGAAGCTGGAAGTGGAGCTTGGCAACA
TGCAAGGGCTGGTGGAGGACTTCAAGACCAAGCATGAGGAAGAGATCCAAAAGCGCACAGACATGGAGAATGAGTTTGTC
ATCATCAAGAAGGATGTGGATGAAGCTTACATGAACAAGGTAGAGCTGGAGTCCCGCCTGGAAGGGCTGACTGACGAGAT
CAACTTGTACAGGCAACTGTATGAAGAGGAGATCCACGAGATACAGTCACAGATTTCTGACACCTCCGTGGTCCTGTCCA
TGGACAGCAGCCGCTCTCTGGACCTGGATGGCATCATCGCCGAGGTCAAGGTCCAGTATGAGGAGATCGCCAACCACAGC
CGGGCTGAGGCTGAGACCATGTACCACATCAAGTACAAGGAGCTGCAGCCCTTGTCTGGGAAGCACGGGGATGACCTCCG
TCACACGAAGATTTCCGAGATGAACCGGAACATCAACCGACTCCGAGGCTGAGATCGAGGGCCTCAAAGGCCAGAGGGCT
TCCCTGGAGGCCGCCATTGCTGATGCCGAGCAGCGTGGGGAGCTGGCCGTCAAGGATGCTCAGGCCAAGCTGGCCGAGCT
GGAGGCCGCTCTGAGAACCGCCACGCAGGACATGGCACGGCAGCTGCGCGAATGCCAGGAGCTCATGAACGTCAAGCTGG
CCCTGGACGTGGAGATCGCCACCTACCGCAAGCTGCTGGAGGGCGAGGAGAGCCGGCTGGAGTCTGGGATGCACAACATG
AGCATCCACACCAAGACCGCCAGCGGGTACTCAGGTGGGCTGACCTCAGCCTACGGGACCCCTGGC

Alignment

ORF - retro_ttru_722 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.95 %
• Parental protein coverage: 85.65 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GSSSSLYGLGASRPRVAARSSYGGPVGAG-IREVTINQSLLTPLQVNIDPSIQQVRQEEREQIKTLNNKF
          GSSSS..G...S....AA...Y.G..G.G.I..VT.NQSLL.PL....DP.IQ.VR..E.EQIK.LN.KF
Retrocopy GSSSSFRGVLGSSMSLAA--GYSGAPGLGDITAVTVNQSLLSPLKLEVDPDIQAVRTQEKEQIKILNSKF

Parental  ASFIDKVRFLEQQNKLLETKWALLQEQKSTKRSCLPGIFEAQTAGLRKQLEALQLDGGRLEVELRNMQDV
          ASF.DKVR.LEQQNK.LETKW.LLQ.QK.T.RS......E.....L..QLE........LEVEL.NMQ..
Retrocopy ASFVDKVRHLEQQNKILETKWNLLQQQK-TVRSNIDNMSESYINNLWRQLESVAQEKLKLEVELGNMQGL

Parental  VEDFKNKYEDEINRHTAAENEFVVLKKDVDVAYMNKVELEAKVDTLKDEINFLRTLYEEELKELQSKVSD
          VEDFK.K.E.EI...T..ENEFV..KKDVD.AYMNKVELE.....L.DEIN..R.LYEEE..E.QS..SD
Retrocopy VEDFKTKHEEEIQKRTDMENEFVIIKKDVDEAYMNKVELESRLEGLTDEINLYRQLYEEEIHEIQSQISD

Parental  TSVVLSMDNSRSLDLEGIIAEVKAQYEEIANRSRAEAEAWYQTKFETLQAQAGKHGDDLRRSRNEIAELN
          TSVVLSMD.SRSLDL.GIIAEVK.QYEEIAN.SRAEAE..Y..K...LQ...GKHGDDLR.....I.E.N
Retrocopy TSVVLSMDSSRSLDLDGIIAEVKVQYEEIANHSRAEAETMYHIKYKELQPLSGKHGDDLRHTK--ISEMN

Parental  RAVQRL-QAEIDSNKNQRAKLEAAVAEAEERGELAVKDARAKLVDLEEALQKAKQDMARQLREYQELMST
          R...RL..AEI...K.QRA.LEAA.A.AE.RGELAVKDA.AKL..LE.AL..A.QDMARQLRE.QELM..
Retrocopy RNINRL>EAEIEGLKGQRASLEAAIADAEQRGELAVKDAQAKLAELEAALRTATQDMARQLRECQELMNV

Parental  KLALDIEIATYRKLLEGEESRMTGAGVGAVNISVVGSTGGAGSWLTFGGTMG
          KLALD.EIATYRKLLEGEESR....G.....I......G..G......GT.G
Retrocopy KLALDVEIATYRKLLEGEESRLE-SGMHNMSIHTKTASGYSGGLTSAYGTPG

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_722 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_722 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,