RetrogeneDB ID: retro_ttru_1318

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_110361:147655..148855(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTTRG00000002574
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: KIF2C
• Ensembl ID: ENSTTRG00000000748
• Aliases: None
• Description: kinesin family member 2C [Source:HGNC Symbol;Acc:6393]

Sequence

>retro_ttru_1318
CAGAAGAAGTCTCCTTGCCTACGGGAAATTGAGAAACTGCAAAGGCAGCGAGAGAAGTGCAGACTGCTGCAGCTGGAGAG
CCGAGCTCAGCGCGCCCTGGCTGTCAACACGGGAAACCCCAACTACGAGATTCAGAGCATGATCCAGGAATGCCGCAGGC
GCCTGGACTGCAGCCAGTTGTCGGGCCCGGAGCCACTGGAGGACCACCGCATCAGCGTCTGCGTGAGGAGGTGGCCTCTC
AACCAGCGGGAGACCACCATGAAGGACCTGGATATCATCATCATCCCCTCGGACAAAGTGGTCATGGTGCACGAGTCCAA
ACAAAAGGTGGACCTTACTCGCTACCTGGAGAACCATTCCTTCTGCTTCGACCATGCCTTCGATGACATCGCCTCCAACG
AGTTGGTGTACCAGTTCACTGCCCAGCCACTTGTTGAGTCCATCTTCCGCAAGGGCATGGCTACCTGATTTGCCTATGGG
CAGACGAGCAGTGGGAAAACGCACACCACGGGTGGAGCCTTTTCAGGAGGGGACCAAGATTGTTCTAAAGGCATTTATGC
CATGGTGGCATAGGATGTCTTCCTCCTGCTCAAAACTTCTGCTTATGAGAAGCTGGACCTCAAAGTCTATGGCACATTTT
TTGAGATTTATGGGGGAAAGGTGTATGACTTGTTGAACTGGAAGAAGACGCAAGTCCTTGGGGATGGCAGTCAGCAAATC
CAGGTGGTCGGGCTGCAGGAACAAGAGGTGTGCTGTGTGGAGGACATGCTGAACCTTGTGGAACTTGGGAACAGCTGCCG
GACTTCAGGACAGACATCAGTCAATGCCCACTCTTCCAGGAGCCACGCAGTGTTCCAGATCATTTTAAAGTCTCGAGGGA
AACTGCATGGTAAGTTTTCCCTTGTTGACTTAGCTGGGAATGAAAGGAGAGTGGATACTGCCAATGCCAACCGGAAAAGA
CAGCTGGAAGGAGCAGAGATTAACAAGAGTCTCCTTGCACTCAAAGAATGCATCCGGGCTTTGGGTCAGAACAAGTCTCA
TACCCCATTCAGAGCCAGCAAGCTCACACAGGTGCTCCGGGACTCCTTTATAGGCCAGAACTCCTCCACTTGCATGATTG
CTACTATCTCTCCAGGGATGGCCCCTTGCAAAAACACCCTCAACACTTTAAGATATGCCAATAGAGTAAAAGAAATAACT

Alignment

ORF - retro_ttru_1318 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.6 %
• Parental protein coverage: 55.05 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RRKSCIVKEMEKMKNKREEKRAQNSEMRIKRAQEYDNSFPNWEFFRMIKEFRGTLECHPLTVTDPIEEHR
          ..KS....E.EK....RE..R....E.R..RA.......PN.E...MI.E.R..L.C..L....P.E.HR
Retrocopy QKKSPCLREIEKLQRQREKCRLLQLESRAQRALAVNTGNPNYEIQSMIQECRRRLDCSQLSGPEPLEDHR

Parental  ICVCVRKRPLNKQELAKKEIDVISVPSKSVLLVHEPKLKVDLTKYLENQAFCFDFAFDETASNEVVYRFT
          I.VCVR..PLN..E...K..D.I..PS..V..VHE.K.KVDLT.YLEN..FCFD.AFD..ASNE.VY.FT
Retrocopy ISVCVRRWPLNQRETTMKDLDIIIIPSDKVVMVHESKQKVDLTRYLENHSFCFDHAFDDIASNELVYQFT

Parental  ARPLVQTIFEGGKATCFAYGQTGSGKTHTMGGDLCGKAQNASKGIYAMASRDVFLLKNQPRYRNLGLEVY
          A.PLV..IF..G.AT.FAYGQT.SGKTHT.GG...G..Q..SKGIYAM...DVFLL.....Y..L.L.VY
Retrocopy AQPLVESIFRKGMAT*FAYGQTSSGKTHTTGGAFSGGDQDCSKGIYAMVA*DVFLLLKTSAYEKLDLKVY

Parental  VTFFEIYNGKLFDLLNKKAKLRVLEDGKQQVQVVGLQEHVVSCADDVIKMIDIGSACRTSGQTFANSSSS
          .TFFEIY.GK..DLLN.K.K..VL.DG.QQ.QVVGLQE..V.C..D.......G..CRTSGQT..N..SS
Retrocopy GTFFEIYGGKVYDLLNWK-KTQVLGDGSQQIQVVGLQEQEVCCVEDMLNLVELGNSCRTSGQTSVNAHSS

Parental  RSHACFQILLRAKGRVHGKFSLVDLAGNERGADTSSADRQTRMEGAEINKSLLALKECI-ALGQNKAHTP
          RSHA.FQI.L...G..HGKFSLVDLAGNER..DT..A.R....EGAEINKSLLALKECI.ALGQNK.HTP
Retrocopy RSHAVFQIILKSRGKLHGKFSLVDLAGNERRVDTANANRKRQLEGAEINKSLLALKECIRALGQNKSHTP

Parental  FRESKLTQV-KDSFIG-DSRTCXIAMISPGISSCEYTLNTLRYADRVKELS
          FR.SKLTQV..DSFIG..S.TC.IA.ISPG...C..TLNTLRYA.RVKE..
Retrocopy FRASKLTQVLRDSFIGQNSSTCMIATISPGMAPCKNTLNTLRYANRVKEIT

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_1318 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1318 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000028678	1 retrocopy	retro_mmus_1251,
Otolemur garnettii	ENSOGAG00000006916	1 retrocopy	retro_ogar_1892,
Pongo abelii	ENSPPYG00000001427	1 retrocopy	retro_pabe_88,
Pteropus vampyrus	ENSPVAG00000009856	1 retrocopy	retro_pvam_3,
Sus scrofa	ENSSSCG00000003931	1 retrocopy	retro_sscr_25,
Tursiops truncatus	ENSTTRG00000000748	1 retrocopy	retro_ttru_1318 ,
Drosophila melanogaster	FBgn0030268	2 retrocopies	retro_dmel_1, retro_dmel_2,