RetrogeneDB ID: retro_acar_207

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: LGf:2133493..2134330(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000012485
• Aliases: None
• Description: None

Sequence

>retro_acar_207
AAGACGCGTCGGCCTGTGCCGGGGAGGGCTCAGCGCAAGAGACCCGCCAGCGACAGGGAGTCCGGGGAGAGTAGTGATGA
AAGCAGTACGGTCGTCAGGAAGGAGAGAAAAAAATAAATTTCCAATGCTATGACTCAGAAGACTTCATATGGCACAAGCA
GTAGTGCTTATGAGGGCAAGCCTGAAGGAATTGGAGTGGCCTATAAGTTTACAAGATCTATGAAACCTGTAGGTCCCGAG
GACATGGGAGCGACAGCTGTATATGAGCTGGACACTGAGAAGGAGAATGATGCCCAAGCCATCTTTGAATGCAGCAAACA
AATTCAGAACAAACTTAGAGGAAAAGAAGATGATAAGATTTATCGTGGGATCAATAATTACCAAAAGTATGTAAAGCCAA
AAGATACGTCCATGGGAAATGCTTCATCAGGCATGGTAAGGAAGGGACCTATACGAGCCCCAGAGCACTTCAGGGCCACT
GTATGGTGGAACTATCAACCTGATATCTGTAAAGGCTACAAAGAAACTGGGTTTTGTGGCTTTGGAGATAGCTGTAAATT
TCTCCACGATCAATCAGACTACAAGCATGGGTGGCAAATTGAGCAAGAGTTGGATGAAGGATGCTATGGAGTTAACGATG
ATGAAAACTATGAAGTTAGCAGTGATGATGAAGACCTTCCTTTCAAGTGTTTCATTTGCAGAAATTCCTTCAAGAACCCT
GTGGTGACCAAGTGTAAACACTACTTCTGTGAGAGCTGTGCCCTGCAACATTATCGCAAATCTCAAAGGTGTTGTGTGTG
TGACAAACAAACAAATGGTGTCTTCAACCCAGCTAAA

Alignment

ORF - retro_acar_207 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.93 %
• Parental protein coverage: 89.42 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RAQRKRPASDRESGESSDESSTVVRKERKKEISNPMIQKTKKSVKDNTSYGTSSSDDEGKPEGIGVAYKS
          ...R..P.........SD..S.....E....................TSYGTSSS..EGKPEGIGVAYK.
Retrocopy KTRRPVPGRAQRKRPASDRESGESSDESSTVVRKERKK*ISNAMTQKTSYGTSSSAYEGKPEGIGVAYKF

Parental  TRSAKPVGPEDMGATAVYELDTEKENDAQAIFERSQQIQNELRGKEDDKIYRGINNYQKYVKPKDTSMGN
          TRS.KPVGPEDMGATAVYELDTEKENDAQAIFE.S.QIQN.LRGKEDDKIYRGINNYQKYVKPKDTSMGN
Retrocopy TRSMKPVGPEDMGATAVYELDTEKENDAQAIFECSKQIQNKLRGKEDDKIYRGINNYQKYVKPKDTSMGN

Parental  ASSGMVRKGPIRAPEHLRATVRWDYQPDICKDYKETGFCGFGDSCKFLHDRSDYKHGWQIERELDEGRYG
          ASSGMVRKGPIRAPEH.RATV.W.YQPDICK.YKETGFCGFGDSCKFLHD.SDYKHGWQIE.ELDEG.YG
Retrocopy ASSGMVRKGPIRAPEHFRATVWWNYQPDICKGYKETGFCGFGDSCKFLHDQSDYKHGWQIEQELDEGCYG

Parental  VNDDENYEVSSDDEDLPFKCFICRNSFKNPVVTKCKHYFCESCALQHYRKSQRCYVCDKQTNGVFNPAK
          VNDDENYEVSSDDEDLPFKCFICRNSFKNPVVTKCKHYFCESCALQHYRKSQRC.VCDKQTNGVFNPAK
Retrocopy VNDDENYEVSSDDEDLPFKCFICRNSFKNPVVTKCKHYFCESCALQHYRKSQRCCVCDKQTNGVFNPAK

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	0.69 RPM	28.78 RPM
SRP009831_brain	0.66 RPM	11.84 RPM
SRP009831_dewlap	1.90 RPM	83.28 RPM
SRP009831_embryo	0.30 RPM	26.05 RPM
SRP009831_heart	0.52 RPM	23.35 RPM
SRP009831_liver	0.08 RPM	8.22 RPM
SRP009831_lung	0.20 RPM	14.10 RPM
SRP009831_ovary	2.05 RPM	75.48 RPM
SRP009831_skeletal_muscle	0.04 RPM	7.54 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_207 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_207 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000012485	1 retrocopy	retro_acar_207 ,
Taeniopygia guttata	ENSTGUG00000001947	1 retrocopy	retro_tgut_17,