RetrogeneDB ID: retro_ogar_3347

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873787.1:1006154..1007074(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000024095
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: KCNK1
• Ensembl ID: ENSOGAG00000002272
• Aliases: None
• Description: potassium channel, subfamily K, member 1 [Source:HGNC Symbol;Acc:6272]

Sequence

>retro_ogar_3347
TACCTGCTCTACCCGATCTTTGGCTCTGTGGCCTTCTCCTCGGTGGAGCTCCCCTACGAGGACCTGCTGCACCAGGAGCT
GCGCAAGCTGAAGCGGCGCTTCCTGGAGGAACACGAGTGTCTGTCGGAGCAGCAGCTGGAGCAGTTCCTGTGCTGGGTGC
TGGAGGCCAGCAACTATGGTGTGTCGGTGCTCAGCAACACCTCAGGAAACTGGAACTGGGACGTCACCTCCGCACTCTTC
TTCGCCAGCACCGTGTTCTCCACCACAGGTTATGGCCACCTTGTGCCTTTGTCGGACAAGGGTAAGGCCTTCTGCATCAT
CTACTCGATCATTGGCATTCCCTTCACTCTCCTGTTCCTAACGGCCGTTGTCCAGCATGTCACTGTGCATGTCACCTGCA
GGCCTGTCCTGTACGTCCATGTCCACTGGGCTTCTCCAAGCAGGTGGTGGCCATCGTCCACGCAGTGACTCTCGGGTTGG
TCACAGTGTCCTGTTTCTTCTCCATCCCGGCTGCCGTCTTCTCAGTCCTGGAGGACCACTCGAACTTCCTCGAGTCCTTT
TATTTTTGTTTTATTTCCCTGAACACCATTGGTCTGGGAGATTATGTTCCTAGGGAAGGCTACAGTCAGAAATTCAGAGA
GCTCTACAAGATTGGGATCACATGTTACCTGTTCCTTGGCCTGATTGCCATGCTGGTAGTTCTGGAAACCTTCTGTGAAC
TTCGTGAACTGAAAAAGTTCCGAAAGACATTCTACGTGAAGAAGGAAAAGGATGAAGACCAAGTGCACATCATTGAGCAT
GACCAGCTGTCCTTCTCCTCCATCACAGACTAGGCTGCTGGCATGAAAGACGATCAGAAGCAAAACGAGTCTTTCATGGC
CACTCGGCTGTCCCCCTACCCCGATGGCTCTGCACACCAT

Alignment

ORF - retro_ogar_3347 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.96 %
• Parental protein coverage: 91.37 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YLLYLVFGAVVFSSVELPYEDLLRQELRKLKRRFLEEHECLSEQQLEQFLGRVLEASNYGVSVLSNASGN
          YLLY..FG.V.FSSVELPYEDLL.QELRKLKRRFLEEHECLSEQQLEQFL..VLEASNYGVSVLSN.SGN
Retrocopy YLLYPIFGSVAFSSVELPYEDLLHQELRKLKRRFLEEHECLSEQQLEQFLCWVLEASNYGVSVLSNTSGN

Parental  WNWDFTSALFFASTVLSTTGYGHTVPLSDGGKAFCIIYSVIGIPFTLLFLTAVVQRVTVHVTRRPVLYFH
          WNWD.TSALFFASTV.STTGYGH.VPLSD.GKAFCIIYS.IGIPFTLLFLTAVVQ.VTVHVT.RPVLY.H
Retrocopy WNWDVTSALFFASTVFSTTGYGHLVPLSDKGKAFCIIYSIIGIPFTLLFLTAVVQHVTVHVTCRPVLYVH

Parental  VRW-GFSKQVVAIVHAVTLGFVTVSCFFFIPAAVFSVLEDDWNFLESFYFCFISLSTIGLGDYVPGEGYN
          V.W.GFSKQVVAIVHAVTLG.VTVSCFF.IPAAVFSVLED..NFLESFYFCFISL.TIGLGDYVP.EGY.
Retrocopy VHW<GFSKQVVAIVHAVTLGLVTVSCFFSIPAAVFSVLEDHSNFLESFYFCFISLNTIGLGDYVPREGYS

Parental  QKFRELYKIGITCYLILGLIAMLVVLETFCELHELKKFRKMFYVKKDKDEDQVHIIEHDQLSFSSIIDQA
          QKFRELYKIGITCYL.LGLIAMLVVLETFCEL.ELKKFRK.FYVKK.KDEDQVHIIEHDQLSFSSI.D.A
Retrocopy QKFRELYKIGITCYLFLGLIAMLVVLETFCELRELKKFRKTFYVKKEKDEDQVHIIEHDQLSFSSITD*A

Parental  AGMKDDQKQNEPFVATQLSPYPDGSAHH
          AGMKDDQKQNE.F.AT.LSPYPDGSAHH
Retrocopy AGMKDDQKQNESFMATRLSPYPDGSAHH

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_3347 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000002272	1 retrocopy	retro_ogar_3347 ,