RetrogeneDB ID: retro_ogar_2234

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873604.1:8049886..8050875(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KIF22
• Ensembl ID: ENSOGAG00000000266
• Aliases: None
• Description: kinesin family member 22 [Source:HGNC Symbol;Acc:6391]

Sequence

>retro_ogar_2234
ATCCTGATATCGGGCCTAACACAGAAGCTGGTCACTAGCTTTGCTGATTTTGAGCGGCTCTTCTCGCCAGCCAGTAGAAA
TCGGACTGTAGGAGCCGCACAGCTCAACCAGCACTCTTCTCGCAGTCATGCTATGCTCCTGGTCAAGGTGGATCAGCAGG
AATGTTTAGCCCCAATTCGCCAAGGGGAAGAAAACTATCTAATTGACTTGGCTGACTCAGAATAATAACCGCCTTACAGG
CAATAAGGGCCTTCTGCTGAAAGAGGGCGAAGCCATCAACACCTCCTCTTTGTTCTGGGCAAGGGGTAGATGCACTGAAC
CGGGGCCTTCCTCGTGTGCCCTACTGGGATAGCAAGCTCACTCACCTACTGCAGGACTCTCTGGGTGGCTCAGCACACAG
CATCCTCATTGCCAACTTTGCCCCCGAGGGACACTTCCACCTGGACACAGTCTCTGCACCCAACTTTGCTGCCAGGTCCA
AAGAAGTGATAAAACGGCCTTTTACCCATGAGAGCCTACAGCTTCATCTCTTGGCACCTGTTCAGCTGTCTCAGAAAGAA
CTGCTAGGCCCATCAGAGGCAAAGAGAGCCTGAGGCCCTGAGGAAGAGGAAATTGGGAGCCATGAGCCCATAGCAGCTCC
ACCTTCTGCCTCCCAGAAACTCAGCCCCCTGCAGAAGCTGAGCAGTATGGACCCAGCCATGCTGGGGCACCTCCTGAGCT
TGGACCACCTGCTGGGCTCCCAGGGGAACCAGGGGGCCCCTCTGCTGAGTACTCCAAGGTGAAAGCGGATGGGGCTCAAG
ACAGTGCAGGTAAAGGACTTGGCGACTGAGAGACTTAAGAGGAAACAAAAAGAACTGGAGGCCAAGGTGCTGGCCCAGGA
GGCTGCAGACCCAGAGGAGAAGGAGAATTGCTCTCCCACAATGCTCTGAACCGTTTCCTATTGCACAGTCACAGTGGCAA
AGCCCCTGAAAAAGGCTGTGGTGATGCCA

Alignment

ORF - retro_ogar_2234 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.6 %
• Parental protein coverage: 51.47 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ILIPGLTQKPITSFADFERHFLPASRNRTVGATRLNQRSSRSHAVLLVKVDQRERLAPFRQREGKLYLID
          ILI.GLTQK..TSFADFER.F.PASRNRTVGA..LNQ.SSRSHA.LLVKVDQ.E.LAP.RQ.E...YLID
Retrocopy ILISGLTQKLVTSFADFERLFSPASRNRTVGAAQLNQHSSRSHAMLLVKVDQQECLAPIRQGEEN-YLID

Parental  LAGSE-DNRRTGNKGLRLKESGAINTS-LFVLGKV-VDALNQGLPRVPYRDSKLTRLLQDSLGGSAHSIL
          LA.SE..NR.TGNKGL.LKE..AINTS.LFVLGK..VDALN.GLPRVPY.DSKLT.LLQDSLGGSAHSIL
Retrocopy LADSE>NNRLTGNKGLLLKEGEAINTS<LFVLGKG<VDALNRGLPRVPYWDSKLTHLLQDSLGGSAHSIL

Parental  IANIAPERRFYLDTVSALNFAARSKEVINRPFTNESLQLHVLAPVKLSQKELLGPSEAKRARGPEEEEIG
          IAN.APE..F.LDTVSA.NFAARSKEVI.RPFT.ESLQLH.LAPV.LSQKELLGPSEAKRA.GPEEEEIG
Retrocopy IANFAPEGHFHLDTVSAPNFAARSKEVIKRPFTHESLQLHLLAPVQLSQKELLGPSEAKRA*GPEEEEIG

Parental  SPEHMAAPASASQKLSPLQKLSSMDPAMVERLLSLDRLLGSQGSQGAPLLNTPRRERMVLMKTVEEKDLE
          S.E..AAP.SASQKLSPLQKLSSMDPAM...LLSLD.LLGSQG.QGAPLL.TPR..RM.L.KTV..KDL.
Retrocopy SHEPIAAPPSASQKLSPLQKLSSMDPAMLGHLLSLDHLLGSQGNQGAPLLSTPR*KRMGL-KTVQVKDLA

Parental  IERLKMKQKELEAKVLAQEAANPKEKENCSPTMLRPLSHRTVTVAKPLKKAVVMP
          .ERLK.KQKELEAKVLAQEAA.P.EKENCSPTML...S..TVTVAKPLKKAVVMP
Retrocopy TERLKRKQKELEAKVLAQEAADPEEKENCSPTML*TVSYCTVTVAKPLKKAVVMP

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_2234 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 6 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007193	1 retrocopy	retro_cjac_144,
Mus musculus	ENSMUSG00000030677	1 retrocopy	retro_mmus_471,
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,
Pteropus vampyrus	ENSPVAG00000017206	1 retrocopy	retro_pvam_313,