RetrogeneDB ID: retro_ogar_1190

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873538.1:3404285..3404828(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000025125
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: EBP
• Ensembl ID: ENSOGAG00000016187
• Aliases: None
• Description: emopamil binding protein (sterol isomerase) [Source:HGNC Symbol;Acc:3133]

Sequence

>retro_ogar_1190
TCCAGTCACACTGCAGTTGTCCCACTGGGGACTTGGCGGCGACTGTCCCTGTGCTGGTTTGCAGTGTGTGGATTTATTCA
CCTGACTATTGAGGGCTGGTTCATTCTCTACCAAGAGGACCTTCTTGGAGACCAAGCCTTCTTATCTCAACTCTGGAAAG
AATATGCCAAGGGAGATAGCCGATACATCCTGGCTGACAACTTCACGGTATGCATGGAAACCATCACAGTTTTACTGTGG
GGACCACTCAGCCTGTGGGTGGTGATCGCCTTTCTCCACCAGCAACCCTTCCGCTTTGTCCTACAGCTTGTGGTCTCCGT
GGGCCAGATCTATGGGGACATAATGTACTTCCTGACAGAGTACAACGACGGATTCCAGCATGGGGAGCTGGGCCATCCCC
TCTACTTCTGGTTTTACTTTGTCTTCATGAACTCCCTGTGGATTGTGCTGCCTGGAATCCTTGTGTTTGATTCTGTGAAG
CAGCTGACACACACCCAGAGTGTGCTGGATATGAAGGCTACGAAAGCCAAGAGCAAGAAGAAT

Alignment

ORF - retro_ogar_1190 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.58 %
• Parental protein coverage: 78.7 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SSHAAVVPLGTWRRLSLCWFAVCGFIHLAIEGWFILYHEDLLGDQAFLSQLWKEYAKGDSRYILGDNFTV
          SSH.AVVPLGTWRRLSLCWFAVCGFIHL.IEGWFILY.EDLLGDQAFLSQLWKEYAKGDSRYIL.DNFTV
Retrocopy SSHTAVVPLGTWRRLSLCWFAVCGFIHLTIEGWFILYQEDLLGDQAFLSQLWKEYAKGDSRYILADNFTV

Parental  CMETITVLLWGPLSLWVVIAFLHQQPFRFVLQLVVSVGQIYGDIMYFLTEYKDGFQHGELGHPLYFWFYF
          CMETITVLLWGPLSLWVVIAFLHQQPFRFVLQLVVSVGQIYGDIMYFLTEY.DGFQHGELGHPLYFWFYF
Retrocopy CMETITVLLWGPLSLWVVIAFLHQQPFRFVLQLVVSVGQIYGDIMYFLTEYNDGFQHGELGHPLYFWFYF

Parental  VFMNSLWIVLPGILVFDSVKQLTHAQSMLDMKVTKAKSKKN
          VFMNSLWIVLPGILVFDSVKQLTH.QS.LDMK.TKAKSKKN
Retrocopy VFMNSLWIVLPGILVFDSVKQLTHTQSVLDMKATKAKSKKN

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_1190 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009287	1 retrocopy	retro_btau_1337,
Dipodomys ordii	ENSDORG00000013766	1 retrocopy	retro_dord_32,
Otolemur garnettii	ENSOGAG00000016187	3 retrocopies	retro_ogar_1190 , retro_ogar_1191, retro_ogar_1942,
Procavia capensis	ENSPCAG00000009202	1 retrocopy	retro_pcap_218,