RetrogeneDB ID: retro_ogar_1871

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873570.1:7245764..7247210(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CUL2
• Ensembl ID: ENSOGAG00000005046
• Aliases: None
• Description: cullin 2 [Source:HGNC Symbol;Acc:2552]

Sequence

>retro_ogar_1871
AAAGTGATACATGAATGTCAACAATGAATGGTAGCAGACCACTTACAGTTCTTACACGCAGAATGTCACAGTATCATTCA
ACAGGAGAAGAAAAATGACATGGAAAATGTCTTACTCTGTGCTGTGTCCACTGGTTTACCTCATAGGATTCAGGAGCTGC
AAAACCATATCCACAATGAGGGCCTTAGAGGAACCAGTAACCTTACTCAGGAAAATATGCCAACTCTATTTGTGGAATCA
GTTTGGGAAGTACACGGTAAATTTGTTCAACTTATTAACACTGTTTTGAATGGTGATCAGCACTTTATGAGTGCACTGGA
TAAGGCCCTTACATCAGTTGTAAATTACAGAGAACCCAAGTCTGTGTGCAAAGCACCTGAACTGCTTGCTAAGTACTGTG
ACAACTTACTAAAGAAATCAGCAAAAGGGATGACAGAGAATGAAGTGGAAGACAAACTCACAAGCTTCATCACTGTTTTC
AAATATATTGATGATAAAGATGTTTTTCAAAAGTTCTACGCAAGAATGCTGGCAAAACGTCTAATTCATGGGTTATCTAT
GTCTAGGGATTCTGAAGAAGCCACGATCAATAAACTAAAGCAAGCCTGTGGTTATGAGTTTACCAGCAAGCTACATCGGA
TGTATACAAATATGAGCGTCAGTGCTGATCTCAACAATAAGTTCAACAATCTTATCAAAAATCAAGACACAGTAATAGAT
TTGGGAATTAGTTTTCAAATATATGTTCTACAGGCTGGTGCATGGCCTCTAACTCAGGCTCCTTCATCCACATTTGCGAT
TCCCCAGGAATTAGGGAAAAGTGTATAGATGTTTGAATTATTTTACAGCCAGCATTTCAGTGGAAGGAAACTGACATGGT
TACATTATCTGAGTACAGGTGAAGTTACAATGAACTATTTGGGCAAACCATATGTAGCCATGGTCACAACATACCAAATA
GCAGTCCTTCTTGCCTTTAACAACAATGAAACTGTCAGCTATAAAGAGCTTCAAGACAGCACTTCGATGAATAAAAAGGA
ACTGACAAAAACAATCAAATCATTGCTTGATATGAAAATGATTAACCACGATTCAGAAAAGGAAGACTTCAATGCAGAAT
CTTCATTTTCAAGAAATACGAACTTTAGCAGTAAAAGAACAAAATTTAAAATCACTACATCTATGCAGAAAGACACTCCA
CAGGAAATGGAGCAGACTAGAGCTGTTGATGAGGACCGGAAAACGTATCTCCAAGCTGCTATAGTTTGTATCATGAAAGC
ATGGAAAATGCTTCGGCCCAATGCTCTTATTCAAGAGGTGATTAGCCAGTCAAGAGCTAGGTTTAATCCCAGTATCAGCA
TGATTAAGAAGTGTATTGAAGTTCTGATAGACAAACAGTACATCGAACGCAGCCAAGCATCGGCAGATGAGTATAGCTAC
GTCGCG

Alignment

ORF - retro_ogar_1871 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.78 %
• Parental protein coverage: 64.84 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KVIHECQQRMVADHLQFLHAECHNIIRQEKKNDMANMYVLLRAVSTGLPHMIQELQNHIHDEGLRATSNL
          KVIHECQQ.MVADHLQFLHAECH.II.QEKKNDM.N..VLL.AVSTGLPH.IQELQNHIH.EGLR.TSNL
Retrocopy KVIHECQQ*MVADHLQFLHAECHSIIQQEKKNDMEN--VLLCAVSTGLPHRIQELQNHIHNEGLRGTSNL

Parental  TQENMPTLFVESVLEVHGKFVQLINTVLNGDQHFMSALDKALTSVVNYREPKSVCKAPELLAKYCDNLLK
          TQENMPTLFVESV.EVHGKFVQLINTVLNGDQHFMSALDKALTSVVNYREPKSVCKAPELLAKYCDNLLK
Retrocopy TQENMPTLFVESVWEVHGKFVQLINTVLNGDQHFMSALDKALTSVVNYREPKSVCKAPELLAKYCDNLLK

Parental  KSAKGMTENEVEDKLTSFITVFKYIDDKDVFQKFYARMLAKRLIHGLSMSMDSEEAMINKLKQACGYEFT
          KSAKGMTENEVEDKLTSFITVFKYIDDKDVFQKFYARMLAKRLIHGLSMS.DSEEA.INKLKQACGYEFT
Retrocopy KSAKGMTENEVEDKLTSFITVFKYIDDKDVFQKFYARMLAKRLIHGLSMSRDSEEATINKLKQACGYEFT

Parental  SKLHRMYTDMSVSADLNNKFNNFIKNQDTVIDLGISFQIYVLQAGAWPLTQAPSSTFAIPQELEKSVQMF
          SKLHRMYT.MSVSADLNNKFNN.IKNQDTVIDLGISFQIYVLQAGAWPLTQAPSSTFAIPQEL.KSV.MF
Retrocopy SKLHRMYTNMSVSADLNNKFNNLIKNQDTVIDLGISFQIYVLQAGAWPLTQAPSSTFAIPQELGKSV*MF

Parental  ELFYSQHFSGRKLTWLHYLCTGEVKMNYLGKPYVAMVTTYQMAVLLAFNNSEIVSYKELQDSTQMNEKEL
          ELFYSQHFSGRKLTWLHYL.TGEV.MNYLGKPYVAMVTTYQ.AVLLAFNN.E.VSYKELQDST.MN.KEL
Retrocopy ELFYSQHFSGRKLTWLHYLSTGEVTMNYLGKPYVAMVTTYQIAVLLAFNNNETVSYKELQDSTSMNKKEL

Parental  TKTIKSLLDVKMINHDSEKEDIDAESSFSLNMNFSSKRTKFKITTSMQKDTPQEMEQTRSAVDEDRKMYL
          TKTIKSLLD.KMINHDSEKED..AESSFS.N.NFSSKRTKFKITTSMQKDTPQEMEQTR.AVDEDRK.YL
Retrocopy TKTIKSLLDMKMINHDSEKEDFNAESSFSRNTNFSSKRTKFKITTSMQKDTPQEMEQTR-AVDEDRKTYL

Parental  QAAIVRIMKARKVLRHNALIQEVISQSRARFNPSISMIKKCIEVLIDKQYIERSQASADEYSYVA
          QAAIV.IMKA.K.LR.NALIQEVISQSRARFNPSISMIKKCIEVLIDKQYIERSQASADEYSYVA
Retrocopy QAAIVCIMKAWKMLRPNALIQEVISQSRARFNPSISMIKKCIEVLIDKQYIERSQASADEYSYVA

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_1871 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 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000001282	2 retrocopies	retro_ogar_2069, retro_ogar_2642,
Otolemur garnettii	ENSOGAG00000005046	3 retrocopies	retro_ogar_1871 , retro_ogar_2954, retro_ogar_804,
Otolemur garnettii	ENSOGAG00000014715	1 retrocopy	retro_ogar_3491,