RetrogeneDB ID: retro_acar_19

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: GL344586.1:10422..11868(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSACAG00000029264
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000021974
• Aliases: None
• Description: None

Sequence

>retro_acar_19
ATGGAGGAGAAAGCATATAAATGTATCGAATGTGGAAAGAGCTTTAGTCAGCATGGAAAGCTGAAGAGACATCAAAGGAC
TCACACTGGGGAGAAACCCTATAACTCCCTCGAGTGTGGACAGAGCTTCACTGAGAAGGGAAGCTTACATAAACATCAAA
GGACTCACACTGGGGAGAAATCCTATAACTGCCTGGAGTGTGGACAGATCTTCAGTGATTGTTCAAGTCTACGTTCACAT
CAAAGGACCCACACTGGGGAGAAACCTTATAAATGCCTGGAGTGTGGACAGAGATTCTCTAATAATTCACATCTACATAG
ACATCAAAGGACTCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTTTGCTGTTAGTTCAGGTCTAC
GTTCACATCAAAAGACGCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTTTGCTGTTAGTTCAGGT
CTACGTTCACATCAAAAGACGCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTTCTCTCATAGTTC
AAACCTACATAGACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGCCTGGAGTGTGGACAGAGATTCTCTAATA
ATTCACATCTACATAGACATCAAAGGACTCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTTTGCT
GTTAGTTCAGGTCTACGTTCACATCAAAAGACGCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTT
TGCTGTTAGTTCAGGTCTACGTTCACATCAAAAGACGCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGA
GCTTCTCTCATAATTCAAACCTACATAGACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGCCTGGACTGTGGC
CAGAGCTTTGCTCGTAGTTCAGGTCTACGTATACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGCCTGGAGTG
TGGACAGAGCTTCACTCAGAGTTCAGGTCTACGTATACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGCCTGG
AGTGTGGACAGAGCTTCACTCAGAGTTCAGGTCTACGTATACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGC
CTGGAGTGTGGACAGAGCTTCACTCAGAGTTCAGGTCTACGTATACATCAAAGGATTCACACTGGGGAGAAACCCTATAC
ATGCCTGGAGTGTGGACAGAGCTTCATTCATAGTTCAGGCCTACGTAGACATCTAAGGACTCACACTGGGGAGAAACCCT
ATACATGCCTGCAGTGTGGACAGAGCTTTGCTCAGAGTAGAACTTTACGTTCCCATCAAAGGACTCACACTGGGGAGAAA
CCGTAG

Alignment

ORF - retro_acar_19 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.67 %
• Parental protein coverage: 62.22 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YKCLECGQSFSHNSHLHRHQRTHTGEKPYNCLECGQSFSHSSSLRRHQRTHTGEKLYNCLECGQSFAHSS
          YKC.ECG.SFS....L.RHQRTHTGEKPYN.LECGQSF....SL..HQRTHTGEK.YNCLECGQ.F...S
Retrocopy YKCIECGKSFSQHGKLKRHQRTHTGEKPYNSLECGQSFTEKGSLHKHQRTHTGEKSYNCLECGQIFSDCS

Parental  GLRSHQRTHTGEKPYKCLECGQSFSHNLHLHRHQRTHTGEKPYNCLECGQSFAVSSGLRSHQRTHTGEKP
          .LRSHQRTHTGEKPYKCLECGQ.FS.N.HLHRHQRTHTGEKPYNCLECGQSFAVSSGLRSHQ.THTGEKP
Retrocopy SLRSHQRTHTGEKPYKCLECGQRFSNNSHLHRHQRTHTGEKPYNCLECGQSFAVSSGLRSHQKTHTGEKP

Parental  YKCLECGQSFAQSGHLRSHQRTHTGEKPYNCLECGQSFSDCLSLRSHQRTHTGEKPYKCLECGQSFSRNS
          Y.CLECGQSFA.S..LRSHQ.THTGEKPYNCLECGQSFS....L..HQRTHTGEKPYKCLECGQ.FS.NS
Retrocopy YNCLECGQSFAVSSGLRSHQKTHTGEKPYNCLECGQSFSHSSNLHRHQRTHTGEKPYKCLECGQRFSNNS

Parental  HLHRHQRTHTGEKPYNCLECGQSFTLKGNLQTHQRTHTGEKPYKCLECGQSFALSSALRRHQRTHTGEKP
          HLHRHQRTHTGEKPYNCLECGQSF.....L..HQ.THTGEKPY.CLECGQSFA.SS.LR.HQ.THTGEKP
Retrocopy HLHRHQRTHTGEKPYNCLECGQSFAVSSGLRSHQKTHTGEKPYNCLECGQSFAVSSGLRSHQKTHTGEKP

Parental  YNCLDCGQSFARSSGLRSHQKTHTGEKPYKCLECGQSFTQGGHLRSHERTHTGEKPYKCLECGQSFACSS
          YNCL.CGQSF...S.L..HQ.THTGEKPYKCL.CGQSF.....LR.H.RTHTGEKPYKCLECGQSF..SS
Retrocopy YNCLECGQSFSHNSNLHRHQRTHTGEKPYKCLDCGQSFARSSGLRIHQRTHTGEKPYKCLECGQSFTQSS

Parental  GLRSHQRTHTGEKPYNCLECGQSFIDCSTLRSHQRTHTGEKPYKCLECGQSFARSSGLCSHQRTHTGEKP
          GLR.HQRTHTGEKPY.CLECGQSF...S.LR.HQRTHTGEKPYKCLECGQSF..SSGL..HQR.HTGEKP
Retrocopy GLRIHQRTHTGEKPYKCLECGQSFTQSSGLRIHQRTHTGEKPYKCLECGQSFTQSSGLRIHQRIHTGEKP

Parental  YNCLECGQSFAHSSGLRSHQKTHTGEKPYKCLECGQSFTQGGHLRSHERTHTGEKP
          Y.CLECGQSF.HSSGLR.H..THTGEKPY.CL.CGQSF.Q...LRSH.RTHTGEKP
Retrocopy YTCLECGQSFIHSSGLRRHLRTHTGEKPYTCLQCGQSFAQSRTLRSHQRTHTGEKP

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	1.12 RPM	0.20 RPM
SRP009831_brain	1.80 RPM	0.33 RPM
SRP009831_dewlap	3.12 RPM	0.76 RPM
SRP009831_embryo	3.53 RPM	0.95 RPM
SRP009831_heart	1.40 RPM	0.67 RPM
SRP009831_liver	0.37 RPM	0.12 RPM
SRP009831_lung	0.71 RPM	0.50 RPM
SRP009831_ovary	2.12 RPM	0.77 RPM
SRP009831_skeletal_muscle	0.22 RPM	0.04 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_19 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_19 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	ENSACAG00000021974	1 retrocopy	retro_acar_19 ,