RetrogeneDB ID: retro_acar_63

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 1:692332..692857(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GTPBP8
• Ensembl ID: ENSACAG00000010189
• Aliases: None
• Description: GTP-binding protein 8 (putative) [Source:HGNC Symbol;Acc:25007]

Sequence

>retro_acar_63
CCTTCCCGAGAAAATGTCATTGATTATTACTCTTCTGCTGTCCGGATGGATCACGTCCCACAATTGTCCCTACCAGAGGT
TTGCTTTTTAGGAAGAAGTAATGTGGGAAAATCCTCCTTGATAAAAGCCTTATTTTCATTGGCCCCAGATGTTGAAGTCA
GAGTTTCCAAAAATCCAGGTCACACAAAAAAGATGAATTTCTTCAAAGTGGGAAAATTCTTCACCTTGGTTGATATGCCA
GGCTTTGGTTACAGAGCACCCAAAGATTTTGCAGAAATGGTGGAACCTTAATTAAATCATCGTCCAAATTTGCAACGAAC
ATTCTTATTAGTGGATGCCCAAGTAGGGATTCAAGCGATTGACAATACTGCTATGGAAATGTTGGAAGAATTTGGGATTC
CTTATGTTCTTGTTTTAACAAAAATTGATAAAGCATCGAAACGAGTGATGGCAATGAATGTGCTAAAGATTCAGGACTTT
GTAAAGGAAAAAACACAAGTTTGCTTTCCTCAGCTCTTCCCAGTC

Alignment

ORF - retro_acar_63 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.71 %
• Parental protein coverage: 62.06 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PSRENVIDYYSSAVRMDHVPQLSLPEVCFLGRSNVGKSSLIKALFSLAPDVEVRVSKNPGHTKKMNFFKV
          PSRENVIDYYSSAVRMDHVPQLSLPEVCFLGRSNVGKSSLIKALFSLAPDVEVRVSKNPGHTKKMNFFKV
Retrocopy PSRENVIDYYSSAVRMDHVPQLSLPEVCFLGRSNVGKSSLIKALFSLAPDVEVRVSKNPGHTKKMNFFKV

Parental  GKFFTLVDMPGFGYRAPKDFAEMVEPYLNHRPNLQRTFLLVDAQVGIQEIDNIAIEMLEEFGIPYVLVLT
          GKFFTLVDMPGFGYRAPKDFAEMVEP.LNHRPNLQRTFLLVDAQVGIQ.IDN.A.EMLEEFGIPYVLVLT
Retrocopy GKFFTLVDMPGFGYRAPKDFAEMVEP*LNHRPNLQRTFLLVDAQVGIQAIDNTAMEMLEEFGIPYVLVLT

Parental  KIDKASKRVMAMNVLKIQDFVKEKTQVCFPQLFPV
          KIDKASKRVMAMNVLKIQDFVKEKTQVCFPQLFPV
Retrocopy KIDKASKRVMAMNVLKIQDFVKEKTQVCFPQLFPV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP009831_adrenal	3.51 RPM	16.71 RPM
SRP009831_brain	0.85 RPM	9.04 RPM
SRP009831_dewlap	10.50 RPM	81.08 RPM
SRP009831_embryo	0.80 RPM	12.98 RPM
SRP009831_heart	1.82 RPM	8.51 RPM
SRP009831_liver	0.45 RPM	10.23 RPM
SRP009831_lung	0.71 RPM	10.18 RPM
SRP009831_ovary	12.55 RPM	69.19 RPM
SRP009831_skeletal_muscle	0.51 RPM	9.62 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_63 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_63 was not experimentally validated.

Homology

Retrocopy orthology:

Anolis carolinensis 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
Anolis carolinensis	ENSACAG00000010189	1 retrocopy	retro_acar_63 ,