RetrogeneDB ID: retro_ogar_986

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873532.1:21829083..21830000(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDK7
• Ensembl ID: ENSOGAG00000010748
• Aliases: None
• Description: cyclin-dependent kinase 7 [Source:HGNC Symbol;Acc:1778]

Sequence

>retro_ogar_986
ATGGCTTTGGATGTGAAGTCTTGGGCAAAGCGTTATGAGAAACTGGACGTCCTCAGGGAGGGGCAGTTTGCCACGGTTTA
CAAGGCCAGAGATAAGAACACCAACTAAATCATGGCCATTAAGAAAATTAAACTTGGACATAGATCAAAAGCTGAAGATG
GTATAAAATAGAACAGCCTCAACAGAGAGAAAGTTACCACAGGAGCTAAGTCATCCAAATATAATTGGTCTTCTTGATGC
TTTTGGACATAAATCTAGTATTAGACTTGTCTTTGATTTTATGGAAACAGATCTAGAGGTTATAATAAAGGATAATGGTC
CTGTGTCACACCATCACACATCAAGCCCACATGACTTGATGACTCTTCAAGGGTTAGAATATTTACATCAACATTTTATC
CTACATAGGGATCTGAAACCAAACAACTTGTTGTTAGACGAAAATGGAGTTCTAAAACTAGCAGATTTTGGCTTGGCCAA
ATCATTTGGGAGCCCCAGTAGAGCTTATACACATCGGGTTGTAACCAGGTGGTATCGGGCCCCTGAGTTACTATTTGGAG
CTAGAATGTATAGTGTGGGTGTAGACATGTGGGCTATTGGCTGTATATTAGTGGAGTTGCTTCTGAGGGTTCCTTTTTGC
CAGGTGATTCAGATCTCGATCAACTGAGAAGAATATTTGAAACTTTGGGCACACCAACTGAGGAGCAGTGGCCTGACATG
TGCAGTCTCCCAGATTATGTGACATTTAAGAGTTTCCCTGGAATCCATTGCAACACATCCTTATTGCAACAGGAGATGAC
TTGCTAGATCCCATACAAGGCTTATTCTTGTTCAATCCATGTACTTGAATTACTGCCACACAGGCATCAAAAACTAAGTA
TTTCAGTAATCAGCCAGGGCCAACACGTGGATGTCAA

Alignment

ORF - retro_ogar_986 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.78 %
• Parental protein coverage: 88.44 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MALDVKSRAKRYEKLDFLGEGQFATVYKARDKNTNQIVAIKKIKLGHRSEAKDGI-NRTALREIKLLQEL
          MALDVKS.AKRYEKLD.L.EGQFATVYKARDKNTN.I.AIKKIKLGHRS.A.DGI.NRTA..E.KL.QEL
Retrocopy MALDVKSWAKRYEKLDVLREGQFATVYKARDKNTN*IMAIKKIKLGHRSKAEDGI>NRTASTERKLPQEL

Parental  SHPNIIGLLDAFGHKSNISLVFDFMETDLEVIIKDNSLV-LTPSHIKA-YMLMTLQGLEYLHQHWILHRD
          SHPNIIGLLDAFGHKS.I.LVFDFMETDLEVIIKDN..V..TPSHIK....LMTLQGLEYLHQH.ILHRD
Retrocopy SHPNIIGLLDAFGHKSSIRLVFDFMETDLEVIIKDNGPV<VTPSHIKP>HDLMTLQGLEYLHQHFILHRD

Parental  LKPNNLLLDENGVLKLADFGLAKSFGSPNRAYTHQVVTRWYRAPELLFGARMYGVGVDMWAVGCILAELL
          LKPNNLLLDENGVLKLADFGLAKSFGSP.RAYTH.VVTRWYRAPELLFGARMY.VGVDMWA.GCIL.ELL
Retrocopy LKPNNLLLDENGVLKLADFGLAKSFGSPSRAYTHRVVTRWYRAPELLFGARMYSVGVDMWAIGCILVELL

Parental  LRVP-FLPGDSDLDQLTRIFETLGTPTEEQWPDMCSLPDYVTFKSFPGI-PLQHIFIAAGDDLLDLIQGL
          LRVP.FLPGDSDLDQL.RIFETLGTPTEEQWPDMCSLPDYVTFKSFPGI.PLQHI.IA.GDDLLD.IQGL
Retrocopy LRVP<FLPGDSDLDQLRRIFETLGTPTEEQWPDMCSLPDYVTFKSFPGI<PLQHILIATGDDLLDPIQGL

Parental  FLFNPCTRITATQALKTKYFSNRPGPTPGCQ
          FLFNPCT.ITATQA.KTKYFSN.PGPT.GCQ
Retrocopy FLFNPCT*ITATQASKTKYFSNQPGPTRGCQ

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_986 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000134058	1 retrocopy	retro_hsap_2335,
Gorilla gorilla	ENSGGOG00000013349	1 retrocopy	retro_ggor_1772,
Mus musculus	ENSMUSG00000069089	1 retrocopy	retro_mmus_383,
Otolemur garnettii	ENSOGAG00000010748	1 retrocopy	retro_ogar_986 ,
Procavia capensis	ENSPCAG00000002566	1 retrocopy	retro_pcap_318,
Pongo abelii	ENSPPYG00000015525	1 retrocopy	retro_pabe_2114,
Pan troglodytes	ENSPTRG00000016946	1 retrocopy	retro_ptro_1707,
Tupaia belangeri	ENSTBEG00000012193	2 retrocopies	retro_tbel_587, retro_tbel_637,