RetrogeneDB ID: retro_ogar_3455

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873851.1:285671..287085(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000026345
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SYT16
• Ensembl ID: ENSOGAG00000016714
• Aliases: None
• Description: synaptotagmin XVI [Source:HGNC Symbol;Acc:23142]

Sequence

>retro_ogar_3455
GTCAACAGCTCTGGAGACGAAGAAGAGCGCTCCACGTCTTCCGACAGTGACCAGGAGGTGATCAAGCAGTTTCAGATTTC
CGTGTCCCGGTCCCAGAGTTTCCGTTCAGGAGCATCTGAGAGAGGAAGGCAGACGGGACTGGAGCAGAAACCGAAACTCG
GCTGTCCGCTGTCTCCCCACCAAGAAGGTAGGGGAGAAGTGTCTGCCTGTGAAGATTTGGATGGAGCCAGCCCACCGAGT
TACTCTAAGAATCTGTCTTATTGCGAAGATGACCCCAGCTCTGCTCATGCACAGTCCCCATGTGAGAGATAAGGTACCAG
GCACCCTGGAACATCTCACCAAGAATCCGGGGAGGCCCGAAGCCTCAGTCGCCAATCCACAGATGGGAGCTTGGAGATGG
AGACAGCTTTTAATAACCAGGGATTTGAAGATTCCTATGCCACTGACAGTTCCTCCATGTGGAGTCCAGAGGACCAGGAC
AGGACCAGCTTGCAGGTGCCATCCGGGGTCTCAGAGCCCATCTCAAAGTGTGGTGACCTAGACGTCATCTTTGAATATAG
AGCTTTGAGCCAGAAACTCACAGTGACCATTGTGAGAGCTCAGGGCCTCCCAGATAAGGACCGAAGTGGTGTCAACTCCT
GGCAAGTTCACGTGGTGATGCTGCCCAGTAAGAAGCAGAGGGGCAGGACGAACATCCAGAGAGGGCCCAACCCTGTCTTC
AAGGAGAAGGTCACCTTCACCAAGCTGGAACCCAGAGATGTGGCTGCCTGTGCCATCCGCTTCCGCCTATACGCTGCCCG
TAAAATGACCCGAGAGAGAATGATCGGAGAGAAACTATTCTATCTCAGCCACCTGCACCCAGAAGGGGAAATGAAAGTGA
CCTTGGTTCTGGAACCAAGAAGTAATATAAGTAGTGGGGGGATCTCCGCTCAGCCCATCTGCAGTTTCTCACAGTGACAG
TGCTTCATCTACCCAGTCACTATCGCATGGAGGGGCCCCGGAACTGCTGGTGGGGCTGTCCTACAATGCCACGACAGGGC
GGTTATCTGTGGAAATGATCAAAGGCAGCCATTTCCGAAACCTGGCTGTTAACCGTGCGCCTGATACATATGGGAAACTC
TTTCTCCTCAATTCTGTGGGTCAGGAGATGTCCCGCTGCAAGACATCCATTCGACGTGGGCAGCCCAATCCTGTGTATAA
GGAGACCTTCGTGTTTCCGGTGGCCCTCTTCCAGCGCTCCGACGTCACGCTGATGATCTCCATCTACAACAGGCGTACCA
TGAAGCGTAAAGAGATGATTGGGTGGATCGCTATGGGCCAGAACAGCAGCGGAGAGGAGGAGCAGGACCACTGGGAGGAG
ATGAAGGAAACCAAAGGCCAGCAGGTGTGCAGGTGGCACGCTCTCCTGGAGTCC

Alignment

ORF - retro_ogar_3455 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.28 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VNSSGDEEELSTSSDSDQEVIKQFEISVSRSQSFRSGASERGRQTGLEQKPKLGSELIIHCQAGKEGCVY
          VNSSGDEEE.STSSDSDQEVIKQF.ISVSRSQSFRSGASERGRQTGLEQKPKLG..L..H.....E....
Retrocopy VNSSGDEEERSTSSDSDQEVIKQFQISVSRSQSFRSGASERGRQTGLEQKPKLGCPLSPHQEGRGEVSAC

Parental  GNLDGASPPSYSKNLSYCEDDPSSAHAQSPCERAGTRHPGTSHQESGEARSLSRQSTDGSLEMETAFNNR
          ..LDGASPPSYSKNLSYCEDDPSSAHAQSPCER.GTRHPGTSHQESGEARSLSRQSTDGSLEMETAFNN.
Retrocopy EDLDGASPPSYSKNLSYCEDDPSSAHAQSPCER*GTRHPGTSHQESGEARSLSRQSTDGSLEMETAFNNQ

Parental  GFEDSYATDSSSMWSPEAMDRTSLQVPSGVSEPISKCGDLDVIFEYRALSQKLTVTIVRAQGLPDKDRSG
          GFEDSYATDSSSMWSPE..DRTSLQVPSGVSEPISKCGDLDVIFEYRALSQKLTVTIVRAQGLPDKDRSG
Retrocopy GFEDSYATDSSSMWSPEDQDRTSLQVPSGVSEPISKCGDLDVIFEYRALSQKLTVTIVRAQGLPDKDRSG

Parental  VNSWQVHVVMLPSKKQRGRTNIQRGPNPVFKEKVTFTKLEPRDVAACAIRFRLYSARKMTRERMMGEKLF
          VNSWQVHVVMLPSKKQRGRTNIQRGPNPVFKEKVTFTKLEPRDVAACAIRFRLY.ARKMTRERM.GEKLF
Retrocopy VNSWQVHVVMLPSKKQRGRTNIQRGPNPVFKEKVTFTKLEPRDVAACAIRFRLYAARKMTRERMIGEKLF

Parental  YLSHLHPEGEMKVTLVLEPRSNISS-GGSPLSPSAVSHSDSASSTQSLSHGGAPELLVGLSYNATTGRLS
          YLSHLHPEGEMKVTLVLEPRSNISS.GGSPLSPSAVSHSDSASSTQSLSHGGAPELLVGLSYNATTGRLS
Retrocopy YLSHLHPEGEMKVTLVLEPRSNISS>GGSPLSPSAVSHSDSASSTQSLSHGGAPELLVGLSYNATTGRLS

Parental  VEMIKGSHFRNLAVNRAPDTYGKLFLLNSVGQEMSRCKTSIRRGQPNPVYKETFMFPVALFQLSDVTLMI
          VEMIKGSHFRNLAVNRAPDTYGKLFLLNSVGQEMSRCKTSIRRGQPNPVYKETF.FPVALFQ.SDVTLMI
Retrocopy VEMIKGSHFRNLAVNRAPDTYGKLFLLNSVGQEMSRCKTSIRRGQPNPVYKETFVFPVALFQRSDVTLMI

Parental  SIYNRRTMKRKEMIGWIALGQNSSGEEEQDHWEEMKETKGQQVCRWHALLES
          SIYNRRTMKRKEMIGWIA.GQNSSGEEEQDHWEEMKETKGQQVCRWHALLES
Retrocopy SIYNRRTMKRKEMIGWIAMGQNSSGEEEQDHWEEMKETKGQQVCRWHALLES

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_3455 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	ENSOGAG00000016714	1 retrocopy	retro_ogar_3455 ,