RetrogeneDB ID: retro_ogar_672

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873525.1:46069669..46070887(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KIF2A
• Ensembl ID: ENSOGAG00000000527
• Aliases: None
• Description: kinesin heavy chain member 2A [Source:HGNC Symbol;Acc:6318]

Sequence

>retro_ogar_672
GCACGTAGGAAATCTAATTGTGTGAAAGAAGTAGAAAAATTGCAAGAAAAACGAGAAAAAAGGAGATTGCAACAGCAAGA
GCTTAGAGAAAAAAGAGCCCAGGATGTCGATGCCACAAATCCAAATTATGAAATTATGTGTATGATCAGAGACTTCAGAG
GAAGTTTGGATTATAGACCCTTAACAACAGCAGATCCCATTGATGAACATAGAATATGTGTTTGTGTAAGAAAACGACCA
CTCAATAAAAAAGAAACTCAAATGAAAGACCTTGATGTAATAACAATCCCTAGTAAAGATGTTGTGATGGTACATGAGCC
AAAACAAAAAGTAGATTTAACAAGGTACCTAGAAAACCAAACATTTCGTTTTGATTATGCCTTTGATGACTCAGCTCCTA
ATGAAATGGTTTACAGGTTTACTGCTAGACCACTAGTGGAAACTATATTTGAAAGAGGAATGGCTACATGCTTTGCTTAT
GGGCAGACTGGCAGTGGAAAAACTCATACTATGGGTGGTGACTTTTCAGGAAAGAACCAAGATTGTTCTAAAGGAATTTA
TGCACTAGCAGCTCGAGATGTCTTTTTAATGCTAAAGAAGCCAAACTATAAGAAGCTAGAACTTCAAGTATATGCAACCT
TTTTTGAAATTTACAGTGGAAAGGTGTTTGACTTGCTAAATAGAAAAACAAAATTAAGAGTTCTAGAAGATGGAAAACAG
CAGGTTCAAGTGGTGGGATTACAGGAATGAGAGGTCAAATGTGTTGAAGATGTACTAAAACTCATTGACATAGGCAACAG
TTGCAGAACATCCGGTCAAACATCTGCAAATGCTCATTCATCTCGAAGCCAGGCAGTGTTTCAGATTATTCTTAGAAGGA
AAGGAAAACTACATGGTAAATTTTCTCTCATCGATTTGGCTGGAAATGAAAGAGGAGCTGATACTTCCAGTGCAGACAGA
CAAACTAGGCTTGAAGGTGCTGAAATTAATAAAAGCCTTTTAGCGCTCAAGGAGTGCATCAGAGCCTTAGGTAGAAATAA
ACCTCATACTCCTTTCCGAGCAAGTAAACTTACTCAGGTGTTAAGAGATTCATTCATAGGTGAAAACTCACGTACCTGCA
TGATTGCCACAATCTCTCCAGGAATGGCATCTTGTGAAAATACTCTTAATACATTAAGATACGCAAATAGGGTGAAAGAG
CTGACTGTAGATCCAGCC

Alignment

ORF - retro_ogar_672 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.78 %
• Parental protein coverage: 56.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SRRKSNCVKEVEKLQEKREKRRLQQQELREKRAQDVDATNPNYEIMCMIRDFRGSLDYRPLTTADPIDEH
          .RRKSNCVKEVEKLQEKREKRRLQQQELREKRAQDVDATNPNYEIMCMIRDFRGSLDYRPLTTADPIDEH
Retrocopy ARRKSNCVKEVEKLQEKREKRRLQQQELREKRAQDVDATNPNYEIMCMIRDFRGSLDYRPLTTADPIDEH

Parental  RICVCVRKRPLNKKETQMKDLDVITIPSKDVVMVHEPKQKVDLTSYLENQTFRFDYAFDDSAPNEMVYRF
          RICVCVRKRPLNKKETQMKDLDVITIPSKDVVMVHEPKQKVDLT.YLENQTFRFDYAFDDSAPNEMVYRF
Retrocopy RICVCVRKRPLNKKETQMKDLDVITIPSKDVVMVHEPKQKVDLTRYLENQTFRFDYAFDDSAPNEMVYRF

Parental  TARPLVETIFERGMATCFAYGQTGSGKTHTMGGDFSGKNQDCSKGIYALAARDVFLMLKKPNYKKLELQV
          TARPLVETIFERGMATCFAYGQTGSGKTHTMGGDFSGKNQDCSKGIYALAARDVFLMLKKPNYKKLELQV
Retrocopy TARPLVETIFERGMATCFAYGQTGSGKTHTMGGDFSGKNQDCSKGIYALAARDVFLMLKKPNYKKLELQV

Parental  YATFFEIYSGKVFDLLNRKTKLRVLEDGKQQVQVVGLQEREVKCVEDVLKLIDIGNSCRTSGQTSANAHS
          YATFFEIYSGKVFDLLNRKTKLRVLEDGKQQVQVVGLQE.EVKCVEDVLKLIDIGNSCRTSGQTSANAHS
Retrocopy YATFFEIYSGKVFDLLNRKTKLRVLEDGKQQVQVVGLQE*EVKCVEDVLKLIDIGNSCRTSGQTSANAHS

Parental  SRSHAVFQIILRRKGKLHGKFSLIDLAGNERGADTSSADRQTRLEGAEINKSLLALKECIRALGRNKPHT
          SRS.AVFQIILRRKGKLHGKFSLIDLAGNERGADTSSADRQTRLEGAEINKSLLALKECIRALGRNKPHT
Retrocopy SRSQAVFQIILRRKGKLHGKFSLIDLAGNERGADTSSADRQTRLEGAEINKSLLALKECIRALGRNKPHT

Parental  PFRASKLTQVLRDSFIGENSRTCMIATISPGMASCENTLNTLRYANRVKEFGISPS
          PFRASKLTQVLRDSFIGENSRTCMIATISPGMASCENTLNTLRYANRVKE....P.
Retrocopy PFRASKLTQVLRDSFIGENSRTCMIATISPGMASCENTLNTLRYANRVKELTVDPA

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_672 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.

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Parental genes homology:

Parental genes homology involve 26 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Anas platyrhynchos	ENSAPLG00000009519	1 retrocopy	retro_apla_3,
Bos taurus	ENSBTAG00000015022	1 retrocopy	retro_btau_180,
Choloepus hoffmanni	ENSCHOG00000007888	1 retrocopy	retro_chof_1348,
Cavia porcellus	ENSCPOG00000009393	1 retrocopy	retro_cpor_72,
Dipodomys ordii	ENSDORG00000006335	1 retrocopy	retro_dord_763,
Equus caballus	ENSECAG00000019810	1 retrocopy	retro_ecab_32,
Homo sapiens	ENSG00000068796	1 retrocopy	retro_hsap_69,
Gorilla gorilla	ENSGGOG00000004774	1 retrocopy	retro_ggor_68,
Macaca mulatta	ENSMMUG00000000399	1 retrocopy	retro_mmul_145,
Monodelphis domestica	ENSMODG00000019605	1 retrocopy	retro_mdom_242,
Mus musculus	ENSMUSG00000021693	1 retrocopy	retro_mmus_68,
Nomascus leucogenys	ENSNLEG00000002865	1 retrocopy	retro_nleu_2329,
Oryctolagus cuniculus	ENSOCUG00000010466	1 retrocopy	retro_ocun_156,
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,
Ochotona princeps	ENSOPRG00000011768	1 retrocopy	retro_opri_815,
Procavia capensis	ENSPCAG00000005089	1 retrocopy	retro_pcap_22,
Rattus norvegicus	ENSRNOG00000014000	2 retrocopies	retro_rnor_1284, retro_rnor_47,
Sorex araneus	ENSSARG00000007768	1 retrocopy	retro_sara_457,
Sarcophilus harrisii	ENSSHAG00000001950	1 retrocopy	retro_shar_30,
Ictidomys tridecemlineatus	ENSSTOG00000012710	1 retrocopy	retro_itri_40,
Tupaia belangeri	ENSTBEG00000009396	1 retrocopy	retro_tbel_761,
Tarsius syrichta	ENSTSYG00000002115	1 retrocopy	retro_tsyr_1791,
Vicugna pacos	ENSVPAG00000008864	1 retrocopy	retro_vpac_572,
Drosophila melanogaster	FBgn0030268	2 retrocopies	retro_dmel_1, retro_dmel_2,