RetrogeneDB ID: retro_ogar_1892

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873572.1:1575595..1576749(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KIF2C
• Ensembl ID: ENSOGAG00000006916
• Aliases: None
• Description: kinesin family member 2C [Source:HGNC Symbol;Acc:6393]

Sequence

>retro_ogar_1892
CAAGGTTCAAAAGCAACTTGTTTGCATATGGCTGGATGGAAGGCAGCAAGACACACACTGTGGACAGAGACCTCTCTGGG
AAAGCCCAGAACACATCCAAAGGAATGTACACCACGACATCCTGGGAGGCCTTCCTGCTGAAGAATCAGCCCTGCTACCA
ACAATGGGGTCTGTAAGTCTGTGTGACATTTCTTCAGATCTACAATGGGAACTGTTTGACCTACTCAACAAGAAGGCCAA
GCTTCACGTGCTAGAAGTCGGCAAGCAGCAGGTGCAGGTGGTGAGGCTGCGGGAGTACCTGGTTAACTTTGCTGGAGATG
TCATCAGGATGGCCAACATGGGCAGCACCTGCAGAACCTCTGGGCAGATATTTGCTAACTCAACCTCCTCCTGTTCCCAT
GCCTGCTTCTAGATTCTTCTTCAAGCCAAAGGGAAAATGCATGACAAGTTCTCTTTGGATCTGGCAGGGAATCAGCACGG
TGCAGACCCTTCCAGTGCTGACCAGCAGACCCAAGTAGAGGGTACAGAAATCGTAAGAGTCTCCTGGCACCAAAGGAGTA
AATCAGGGCCCTGAGACAGAGCAAGGCTCACAACCCACTCCATGACAGCAATCTGGCACAGGTGTTGAAGGACTCATTTA
TCAGGGAGAACTCAAGGACTCCCATGATTGCCATGATCTCACCAGACGTAAGCATCTTTGAATATGCTTTAAACACACTG
AGATATGCAGACAGGGCCAAGGAGATGAGCCCCCACAATGGGCCCAGGGGAGAGCAGCCAACTCAAATGGAAACAGAGAG
ATGAAAACCAGCTCTAATGAGACCATGATGACAGGCAACTTCTCCAAGGAGGAGGAATAACTGTCTTCCCAAATGTCCAG
CTTCAACGAATCCATGACTCAGATCATGGAGCTGGAGGAGAAGGCTGTAGAAAGAGCTTGAGGAAGTTATACATCATGGA
CCAGCCTGGCTTGGGCTGTCTAAAATGACCAAGCAGCTGGACTGCAACCTGGAAACCTTTGTGAACCAAGCAGAATCTAC
CCTGGCACAACAAGCCAAGTACTTCTCAGCCCTGCAAGATGTCACTGAGGCCTTGCACCTGGCCATGCAGCTGAAAGAGC
AGGCTGGAGACAAATTAGCAGCAAGCCACAGCCC

Alignment

ORF - retro_ogar_1892 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.72 %
• Parental protein coverage: 53.68 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  EGGKATC-FAYGQTGSGKTHTMGGDLSGKAQNASKGIYAMASRDVFLLKNQPRYRKLSLEVYVTFFEIYN
          .G.KATC.FAYG.....KTHT...DLSGKAQN.SKG.Y...S...FLLKNQP.Y....L.V.VTF..IYN
Retrocopy QGSKATC<FAYGWMEGSKTHTVDRDLSGKAQNTSKGMYTTTSWEAFLLKNQPCYQQWGL*VCVTFLQIYN

Parental  G-KLFDLLNKKTKLRVLEDGKQQVQVVGLQEHLVNSAEDVIKMIDVGSACRTSGQTFANSNSSRSHACFQ
          G..LFDLLNKK.KL.VLE.GKQQVQVV.L.E.LVN.A.DVI.M...GS.CRTSGQ.FANS.SS.SHACF.
Retrocopy G<ELFDLLNKKAKLHVLEVGKQQVQVVRLREYLVNFAGDVIRMANMGSTCRTSGQIFANSTSSCSHACF*

Parental  ILLRAKGRMHGKFSLVDLAGNERGADTSSADRQTRMEGAEI-NKSLLALKECIRALGQNKAHTPFRESKL
          ILL.AKG.MH.KFSL.DLAGN..GAD.SSAD.QT..EG.EI..KSLLA.KE.IRAL.Q.KAH.P...S.L
Retrocopy ILLQAKGKMHDKFSL-DLAGNQHGADPSSADQQTQVEGTEI<RKSLLAPKE*IRALRQSKAHNPLHDSNL

Parental  TQVLRDSFIGENSRTCMIAMISPGISSCEYTLNTLRYADRVKELSPHSGPSGEQPIQMETE-DMGASSNG
          .QVL.DSFI.ENSRT.MIAMISP..S..EY.LNTLRYADR.KE.SPH.GP.GEQP.QMETE..M..SSN.
Retrocopy AQVLKDSFIRENSRTPMIAMISPDVSIFEYALNTLRYADRAKEMSPHNGPRGEQPTQMETE<EMKTSSNE

Parental  TSMTGNFSKEEEELSSQMSSFNEAMTQIRELEERAVE-ELKEIIQQGPGWLELSEMTEQPDYDLETFVNK
          T.MTGNFSKEEE.LSSQMSSFNE.MTQI.ELEE.AVE.EL.E.I..GP.WL.LS.MT.Q.D..LETFVN.
Retrocopy TMMTGNFSKEEE*LSSQMSSFNESMTQIMELEEKAVE>ELEEVIHHGPAWLGLSKMTKQLDCNLETFVNQ

Parental  AEFALAQQAKHFSALRDVIKALRLAMQLEEQAS-KQISSKKRP
          AE..LAQQAK.FSAL.DV..AL.LAMQL.EQA...QISSK..P
Retrocopy AESTLAQQAKYFSALQDVTEALHLAMQLKEQAG<RQISSKPQP

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_1892 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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.

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000028678	1 retrocopy	retro_mmus_1251,
Otolemur garnettii	ENSOGAG00000000266	1 retrocopy	retro_ogar_2234,
Otolemur garnettii	ENSOGAG00000000527	5 retrocopies	retro_ogar_126, retro_ogar_3166, retro_ogar_3498, retro_ogar_3501, retro_ogar_672,
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,