RetrogeneDB ID: retro_acar_183

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: GL343352.1:584949..585723(+)
• Located in intron of: ENSACAG00000000891

Retrocopy information

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

Parental gene information

• Parental gene symbol: BAMBI
• Ensembl ID: ENSACAG00000007580
• Aliases: None
• Description: BMP and activin membrane-bound inhibitor homolog [Source:UniProtKB/TrEMBL;Acc:G1KGS2]

Sequence

>retro_acar_183
CGCCACTCCAGCTTCCTCTTCGTCTGGCTGCAACTGGAGCTGTGCGCCATGGCCATCCTCCTGACCAAAGGTGAAATTAG
ATGCTACTGTGATGCTGCGCATTGTGTCGCCACAGGCTACATGTGCAAATCTGAGCTCAACGCTTGCTTCTCCAGACTGC
TTGACCCACAGAACAGCCATTCTCCACTTACTCATGGCTGCTTAGACTCTCTTGCAAGCACCTCAGACCTCTGTCAAGCC
AACCTGGCACAAAACCACTCTGGAATGACAATCCCCAAGTTGGAGTGTTGTCACGAAGACATGTGCAATTACAAAGGGTT
ATATGACGTCCTTTCTCCGTCCAGAGGAGAACTTTCAGGACAAGGCAGCAGATACCAGCACGATTCCAGCAGGAACCTCA
TCACGAAGGTCCAGGAGCTGACCTCCTCGAAAGAACTCTGGTTCAGGGCCGCCGTCATTGCGGTCCCCATTGCCGGTGGG
CTGATCTTGGTGCTCCTCATCATGCTGGCGCTGCGCATGCTCAGGAGCGAGAACAAGAGACTGCAGGACCAGAGGCAGCA
AATGCTCTCCCGACTGCACTACAGCTTCCACGGGCACCATTCCAAAAAGGGACAGGTGGCCAAGCTGGACTTGGAATGCA
TGGTGCCGGTGACGGGTCACGAAAACTGCTGCCTGACCTGCGACAAAATGCGACAGCCAGACCTCAGCAACGACAAAATA
CTTTCACTAGTCCACTGGGGGATGTACGGTGGGCATGGAAAGCTGGAGTTCGTG

Alignment

ORF - retro_acar_183 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.41 %
• Parental protein coverage: 99.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KYSNYNITLLRIELLFLSNLLYIGEIRCYCDAAHCVATGYMCKSELNACFSRLLDPQNSHSPLTHGCLDS
          ..S......L..EL.....LL..GEIRCYCDAAHCVATGYMCKSELNACFSRLLDPQNSHSPLTHGCLDS
Retrocopy RHSSFLFVWLQLELCAMAILLTKGEIRCYCDAAHCVATGYMCKSELNACFSRLLDPQNSHSPLTHGCLDS

Parental  LASTSDLCQANLAQNHSGMTIPKLECCHEDMCNYKGLYDVLSPSRGELSGQGSRYQHDSSRNLITKVQEL
          LASTSDLCQANLAQNHSGMTIPKLECCHEDMCNYKGLYDVLSPSRGELSGQGSRYQHDSSRNLITKVQEL
Retrocopy LASTSDLCQANLAQNHSGMTIPKLECCHEDMCNYKGLYDVLSPSRGELSGQGSRYQHDSSRNLITKVQEL

Parental  TSSKELWFRAAVIAVPIAGGLILVLLIMLALRMLRSENKRLQDQRQQMLSRLHYSFHGHHSKKGQVAKLD
          TSSKELWFRAAVIAVPIAGGLILVLLIMLALRMLRSENKRLQDQRQQMLSRLHYSFHGHHSKKGQVAKLD
Retrocopy TSSKELWFRAAVIAVPIAGGLILVLLIMLALRMLRSENKRLQDQRQQMLSRLHYSFHGHHSKKGQVAKLD

Parental  LECMVPVTGHENCCLTCDKMRQPDLSNDKILSLVHWGMYGGHGKLEFV
          LECMVPVTGHENCCLTCDKMRQPDLSNDKILSLVHWGMYGGHGKLEFV
Retrocopy LECMVPVTGHENCCLTCDKMRQPDLSNDKILSLVHWGMYGGHGKLEFV

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	3.22 RPM	6.63 RPM
SRP009831_brain	0.90 RPM	1.94 RPM
SRP009831_dewlap	38.69 RPM	33.24 RPM
SRP009831_embryo	7.26 RPM	28.25 RPM
SRP009831_heart	9.75 RPM	9.44 RPM
SRP009831_liver	5.24 RPM	7.94 RPM
SRP009831_lung	4.43 RPM	5.84 RPM
SRP009831_ovary	35.87 RPM	32.32 RPM
SRP009831_skeletal_muscle	0.47 RPM	0.55 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_183 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_183 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	ENSACAG00000007580	1 retrocopy	retro_acar_183 ,