RetrogeneDB ID: retro_cfam_1107

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 23:35214897..35215655(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANXA7
• Ensembl ID: ENSCAFG00000014749
• Aliases: None
• Description: annexin A7 [Source:HGNC Symbol;Acc:545]

Sequence

>retro_cfam_1107
TACCCAAGTCAGCCTGCCGCAACGACTCAGGAAACCCAAGGAACGATCCGACCAGCTGCCAACTTTGACGCCATGAGAAA
TGCAGAAATTCTTTGGAAAGCAATGAAGGGTTTTGGGACAGACGAACAGGCAATTGTGGACGTTGTGGTCAACCGTTCCA
ATGATCAGAGGCAAAAAAATTAAAGCAGCTTTGAAGACCATGTATGGCAAGGATTTAATCAAAGACCTCAAATCAGAGTT
AAGTGGAAATATGGAAGAACTGATCCTTGCTCTATTCATGCCATCTACATATTATGATGGCTGGAGTTTACAGAATGCAA
TGAAGGGAGCAGGAACTCAGGAACGTGTATTGATTGCAATTTTGTGCACAAGAACAAATCAGAAAATCCGAGAGATTGTT
AGATGTTATCAATCAGAATTTGGACAAAACCTTGAAAAGGACATTAGGTCAGACACATCAGGGCATTTTGAACGTTTACT
TGTATCCATGTGCCAGGAAATTGTGGTGAGAACCAGAATGTTAACCACCAGTGGATCAGGAAGATGCTCAACATCTCTAT
CAAGCTGGTGAGGGGAGACTTGGGACAGATGAATCTTGCTTTAACATGATTCTTGCCGCAAGAAGCTTTCCTCAGCTGAA
AGCTACTGTGGAGGCTTATTCCAGGGTGGCTAATCAAGATTTGCTAAGTAGTGTTGCCCGTGAATTTTCTGGAAATGTTG
AAAGTGATTTAAAGACTATCTTGCAATGTGTCTTGAGC

Alignment

ORF - retro_cfam_1107 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.06 %
• Parental protein coverage: 51.84 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  FNSEPAAMTQGTQGTIRPAANFDAMRDAEILRKAMKGFGTDEQAIVDVVANRSNDQRQK-IKAAFKTMYG
          ..S.PAA.TQ.TQGTIRPAANFDAMR.AEIL.KAMKGFGTDEQAIVDVV.NRSNDQRQK.IKAA.KTMYG
Retrocopy YPSQPAATTQETQGTIRPAANFDAMRNAEILWKAMKGFGTDEQAIVDVVVNRSNDQRQK>IKAALKTMYG

Parental  KDLIKDLKSELSGNMEELILALFMPSTYYDAWSLRNAMKGAGTQERVLIEILCTRTNQEIREIVRCYQSE
          KDLIKDLKSELSGNMEELILALFMPSTYYD.WSL.NAMKGAGTQERVLI.ILCTRTNQ.IREIVRCYQSE
Retrocopy KDLIKDLKSELSGNMEELILALFMPSTYYDGWSLQNAMKGAGTQERVLIAILCTRTNQKIREIVRCYQSE

Parental  FGRDLEKDIRSDTSGHFERLLVSMCQ-GNRDENQNVNHQ-LAQEDAQRLYQAGEGRLGTDESCFNMILAT
          FG..LEKDIRSDTSGHFERLLVSMCQ.GN..ENQNVNHQ...QEDAQ.LYQAGEGRLGTDESCFNMILA.
Retrocopy FGQNLEKDIRSDTSGHFERLLVSMCQ<GNCGENQNVNHQ<VDQEDAQHLYQAGEGRLGTDESCFNMILAA

Parental  RSFPQLKATVEAYSRVANRDLLSSVAREFSGNVESGLKTILQCALN
          RSFPQLKATVEAYSRVAN.DLLSSVAREFSGNVES.LKTILQC.L.
Retrocopy RSFPQLKATVEAYSRVANQDLLSSVAREFSGNVESDLKTILQCVLS

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
SRP012049_cerebellum	0.04 RPM	12.18 RPM
SRP017611_brain	0.08 RPM	16.75 RPM
SRP017611_kidney	0.33 RPM	70.59 RPM
SRP017611_liver	0.22 RPM	22.12 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_1107 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_1107 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_1107 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014749	1 retrocopy	retro_cfam_1107 ,
Canis familiaris	ENSCAFG00000016686	3 retrocopies	retro_cfam_1631, retro_cfam_367, retro_cfam_707,
Callithrix jacchus	ENSCJAG00000001720	3 retrocopies	retro_cjac_1288, retro_cjac_2174, retro_cjac_860,
Microcebus murinus	ENSMICG00000013143	2 retrocopies	retro_mmur_404, retro_mmur_884,
Pteropus vampyrus	ENSPVAG00000013001	1 retrocopy	retro_pvam_1365,
Rattus norvegicus	ENSRNOG00000007136	1 retrocopy	retro_rnor_2446,
Ictidomys tridecemlineatus	ENSSTOG00000012433	1 retrocopy	retro_itri_1796,