RetrogeneDB ID: retro_cfam_1154

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 24:41226461..41226944(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BLVRA
• Ensembl ID: ENSCAFG00000003476
• Aliases: None
• Description: biliverdin reductase A [Source:HGNC Symbol;Acc:1062]

Sequence

>retro_cfam_1154
ATTCCTGAAAATGTGGTGGGGAAAGATCTGCTGAAAGGGTCTCTTCTCTTCACAGCTGGTCCATTGGAAGAAGAGCGGTT
TGGTTTCCCTGCGTTTAGTGGCATTTCTCACCTGACCTGGCTGGTCTCCCTCTTTGGGGAGCTTTCTCTTCTATCCGCCA
CATTGGAAGAAAGAAAGCAAGATCAATATATGAAAATGACTGTGTGCTTGGAGACAGAGAACAAACGTCCACTCACATGA
ATTGAAGAGAAAAGGCCTGGTCTAAAATGAAACCGACATTTAAGCTTCCATTTTAAATCTGGTTCCCTGGAGAACATGCC
AAATGTAGGAGTCAATAAGAATATTTTCCTGAAAGATCAAAATATATTTGTTCAGAAACTTTTGGGTCAGTTTTCTGAAT
AGGAGCTGGCTGCCGAAAAGAAGTGCATCCTGCACTGCCTATGGCTCGCAGAAGAAATCCAGAAATATTGCTACTCAAAG
AAG

Alignment

ORF - retro_cfam_1154 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.93 %
• Parental protein coverage: 54.39 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LKKEVVGKDLLKGSLLFTAGPLEEERFGFPAFSGISRLTWLVSLFGELSLVSATLEEQKEDQYMKMTVCL
          ....VVGKDLLKGSLLFTAGPLEEERFGFPAFSGIS.LTWLVSLFGELSL.SATLEE.K.DQYMKMTVCL
Retrocopy IPENVVGKDLLKGSLLFTAGPLEEERFGFPAFSGISHLTWLVSLFGELSLLSATLEERKQDQYMKMTVCL

Parental  ETENKRPLTWIEEKGPGLKRNRHLSFHFKSGSLENMPNVGVNKNIFLKDQNIFVQKLLGQFSEKELAAEK
          ETENKRPLT.IEEK.PGLK.NRHLSFHFKSGSLENMPNVGVNKNIFLKDQNIFVQKLLGQFSE.ELAAEK
Retrocopy ETENKRPLT*IEEKRPGLK*NRHLSFHFKSGSLENMPNVGVNKNIFLKDQNIFVQKLLGQFSE*ELAAEK

Parental  KRILHCLWLAEEIQKYCYSKK
          K.ILHCLWLAEEIQKYCYSKK
Retrocopy KCILHCLWLAEEIQKYCYSKK

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	0.00 RPM	28.64 RPM
SRP017611_brain	0.00 RPM	26.12 RPM
SRP017611_kidney	0.00 RPM	47.28 RPM
SRP017611_liver	0.00 RPM	25.45 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_1154 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_1154 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_1154 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003476	1 retrocopy	retro_cfam_1154 ,