RetrogeneDB ID: retro_ogar_2036

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873583.1:5260728..5261951(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC39A8
• Ensembl ID: ENSOGAG00000008343
• Aliases: None
• Description: solute carrier family 39 (zinc transporter), member 8 [Source:HGNC Symbol;Acc:20862]

Sequence

>retro_ogar_2036
TTGGTGGCCGAGCTTGGAGCCGCCCCCAGCCAGGGCACCTCGGAGCCAGGCCAGCTGCACTTCAACCAGTGTTTATCTGG
TGAAGAGATCTTTTCCCTTCATGGCTTTTCAAATGCCACCCAGATAACCAGCTCAAACTTCTCTGTCATCTGTCCAGCAG
TCTTACAGCAATTTAACTTTCGTCCTTGCCAGGATGGGCCCAAGCACAAAACAAAACCAAGTCTTTCAGAATTTGGGGGA
TATGGATTCCTGTCAGTGACAATCATTAATCTGGCATCTCTCTTCAGATTGGTTTTGACTCCATTGATAGGAAATCTTAC
TTACCAAAAATTTTGACCTATTTTGTTGGGTTGGCTATTGGGACTCTTTTTTCAAATGCAATTTTCCAACTTATTCCAGA
GGCATTTGGATTCAATCCCCAAATTGACAACTATGTTGAGAAGGCTGTTGCTGTATTTGGTGGATTTTACTTACTTTTCT
TTTTTGAAAGAATGCTTAAGAAGCTATTAAAGACATGTGGTCAGAATGATCATACCCACTTTCACAGTGATGACTTCGGT
CTTCAAGAAAAAGCACATCAACCTAAAATGTTACCTGCCATCAATGGTGTAACGTGCTATGCAAATCCTGCTGTCACAGA
GCCTAATGGATAAATCCTTTTTGATAATGTCACTGTAGTATCTCTACAGGATGCAAAAAGGGAGTCAAGTTCATGTACCT
GTCTGAAGGGACCCAAACTGTCAGAAATAGGGACCATTGCCTGGATGATAACACTCAGTGATGCCCTCCACAACTTCATC
GATGGCCTGCCCATTGGGCTTCCTACGTCTCTGCTTCAGGGACTCAGCACTTTGATAGCAATCCTGTGCGAGGAGTTTCC
TCACGAGTTAGAGGACTTTGTGATCCTACTCAGTGTAGGGATGAGCACTCGCCAAGCCTTGCTATTCACCTTCCTTTCTG
CATTTTCCTGCTATGTTGGGCTCGCTTTTGGCATTTTGGTCTGCAATAATTTTGCTCCACATATCATATTTGCACTTCCT
AGAGGCATGTTTCTCTATATTTCTCTGGCAGATATGTTTCCAGAGATAAATGATATGCTGAGAGAAAAAATAACTGGAAG
AAAAACCGATTTCACATTCTTCATGATTCAGAATCCTGGAATGTTAACTGGATTCACAACCATTCTGCTAATTACCCTGT
ATGCAGGAGAAATCGGTCTGGAG

Alignment

ORF - retro_ogar_2036 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.05 %
• Parental protein coverage: 89.13 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LLEQLGAAPSRGAAEPGQLHFNQCLSSEEIFSLHGFSNATQITSSNFSVICPAVLQQLNFHPCQDRPKHK
          L...LGAAPS.G..EPGQLHFNQCLS.EEIFSLHGFSNATQITSSNFSVICPAVLQQ.NF.PCQD.PKHK
Retrocopy LVAELGAAPSQGTSEPGQLHFNQCLSGEEIFSLHGFSNATQITSSNFSVICPAVLQQFNFRPCQDGPKHK

Parental  TKPSLSEVWGYGFLSVTIINLASLLGLVLTPLI-KKSYFPKILTYFVGLAIGTLFSNAIFQLIPEAFGFN
          TKPSLSE..GYGFLSVTIINLASL..LVLTPLI..KSY.PKILTYFVGLAIGTLFSNAIFQLIPEAFGFN
Retrocopy TKPSLSEFGGYGFLSVTIINLASLFRLVLTPLI<RKSYLPKILTYFVGLAIGTLFSNAIFQLIPEAFGFN

Parental  PQVDNYVEKAVAVFGGFYLLFFFERTLKMLLKTYGQNDHTHFHNDDFGPQEKAHQPKTLPAINGVTCYAN
          PQ.DNYVEKAVAVFGGFYLLFFFER.LK.LLKT.GQNDHTHFH.DDFG.QEKAHQPK.LPAINGVTCYAN
Retrocopy PQIDNYVEKAVAVFGGFYLLFFFERMLKKLLKTCGQNDHTHFHSDDFGLQEKAHQPKMLPAINGVTCYAN

Parental  PAVTEPNGHIHFDNVSVVSLQDGKRESSSCTCLKGPKLSEIGTIAWMITLSDALHNFIDGLAIGASCTLS
          PAVTEPNG.I.FDNV.VVSLQD.KRESSSCTCLKGPKLSEIGTIAWMITLSDALHNFIDGL.IG.....S
Retrocopy PAVTEPNG*ILFDNVTVVSLQDAKRESSSCTCLKGPKLSEIGTIAWMITLSDALHNFIDGLPIG--LPTS

Parental  LLQGLSTSIAILCEEFPHELGDFVILLSAGMSTRQALLFNFLSACSCYVGLAFGILVGNNFAPNIIFALA
          LLQGLST.IAILCEEFPHEL.DFVILLS.GMSTRQALLF.FLSA.SCYVGLAFGILV.NNFAP.IIFAL.
Retrocopy LLQGLSTLIAILCEEFPHELEDFVILLSVGMSTRQALLFTFLSAFSCYVGLAFGILVCNNFAPHIIFALP

Parental  GGMFLYISLADMFPEINDMLREKITGRKTDFTFFMIQNAGMLTGFTTILLITLYAGEIDLE
          .GMFLYISLADMFPEINDMLREKITGRKTDFTFFMIQN.GMLTGFTTILLITLYAGEI.LE
Retrocopy RGMFLYISLADMFPEINDMLREKITGRKTDFTFFMIQNPGMLTGFTTILLITLYAGEIGLE

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_2036 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	ENSOGAG00000008343	1 retrocopy	retro_ogar_2036 ,