RetrogeneDB ID: retro_ogar_1184

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873538.1:17567409..17567995(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BCCIP
• Ensembl ID: ENSOGAG00000010901
• Aliases: None
• Description: BRCA2 and CDKN1A interacting protein [Source:HGNC Symbol;Acc:978]

Sequence

>retro_ogar_1184
ATGGTATCCCGGCACAAGTGGCAGGCTGTGGGGACTGTGGTTCTGCCGCTGCCTGGCGCCCCTGCCCAGGGTGACAACGA
TGAGGAGGAGCATGAAACTGAGGATAAGGACAAAGACGAAGAAGGCAGTGATGAGGAAGAAGAGGCAGACGATGAGATCA
CTGACGAGGAAGTGAATATCGAATTTGAAGCTTATTCCATCTCAGACAGTGATTATGATGGAATTAAGAAATACCTGCAT
TAGCTTTTCTTAAAGGCTCCTGTGAACTTTGGGGAACTAACAGAAATCTTAATACAGCAGAACCGTGTTGGAAGTGTGAT
TAAGCAAACAGATGTTTCAGAAGACAGCAGTGATGATATGGATGAAGATGAGATTTTTGGTTGCATAAGCCTTTTAAATT
TAATTGAAAGAAAGGGTACCTAGTGTGCTGAACAAATTAAAGAGTTGATTCTAAGCTTCTGTGAGAAGAACTGTGACAGG
AGCATGGTTGAAACAGCTGGATGAGCTACTACATGACACCACCAAGCCTGTGGGCTTTCTGCTGAGTGAAAGATTCATTA
ACGTCCCTCACCCTGCCCGTGCACCA

Alignment

ORF - retro_ogar_1184 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.61 %
• Parental protein coverage: 61.9 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MASRHKRRAVGTAVPRPPGARAQGDEVEEERETEDESEDEEDSDEEEDEDDEITDEEVNIEFEAYSISDS
          M.SRHK..AVGT.V...PGA.AQGD..EEE.ETED...DEE.SDEEE..DDEITDEEVNIEFEAYSISDS
Retrocopy MVSRHKWQAVGTVVLPLPGAPAQGDNDEEEHETEDKDKDEEGSDEEEEADDEITDEEVNIEFEAYSISDS

Parental  DHDGIKKLLQQLFLKAPVNIAELTEILIQQNHVGSVIKQTDVSEDSDDDVDEDEIFGFISLLNLTERKGT
          D.DGIKK.L..LFLKAPVN..ELTEILIQQN.VGSVIKQTDVSEDS.DD.DEDEIFG.ISLLNL.ERKGT
Retrocopy DYDGIKKYLH*LFLKAPVNFGELTEILIQQNRVGSVIKQTDVSEDSSDDMDEDEIFGCISLLNLIERKGT

Parental  QCAEQIKELILSFCEKNCDRSTVE-QLDKLLNDTTKPVGFLLSERFINVPPQIALP
          .CAEQIKELILSFCEKNCDRS.VE.QLD.LL.DTTKPVGFLLSERFINVP.....P
Retrocopy *CAEQIKELILSFCEKNCDRSMVE>QLDELLHDTTKPVGFLLSERFINVPHPARAP

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_1184 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 8 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012873	1 retrocopy	retro_cfam_1356,
Callithrix jacchus	ENSCJAG00000012411	1 retrocopy	retro_cjac_2838,
Dasypus novemcinctus	ENSDNOG00000002939	1 retrocopy	retro_dnov_530,
Macaca mulatta	ENSMMUG00000008541	1 retrocopy	retro_mmul_472,
Oryctolagus cuniculus	ENSOCUG00000008761	1 retrocopy	retro_ocun_843,
Otolemur garnettii	ENSOGAG00000010901	1 retrocopy	retro_ogar_1184 ,
Ictidomys tridecemlineatus	ENSSTOG00000011828	4 retrocopies	retro_itri_1004, retro_itri_1130, retro_itri_1513, retro_itri_559,
Tupaia belangeri	ENSTBEG00000002570	4 retrocopies	retro_tbel_1259, retro_tbel_1260, retro_tbel_2963, retro_tbel_3044,