RetrogeneDB ID: retro_cfam_632

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 14:27428751..27429132(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCAFG00000002317
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CRSP-2
• Ensembl ID: ENSCAFG00000008550
• Aliases: CRSP-2, CRSP2
• Description: Canis lupus familiaris calcitonin receptor-stimulating peptide-2 (CRSP-2), mRNA. [Source:RefSeq mRNA;Acc:NM_001002947]

Sequence

>retro_cfam_632
ATGGGATTCTGGAAGTTGTCCCCGTTTCTGGCTATTGGTCTCCTGGTCATGTATCAAGCAGGCATCCTACAGGCTGCACC
ATTCAGGTCTGCCTTGGAGAACCCACTGGAATCTGCTACACTCACTGAGGACGAAATATGGGTCCTACTGACTGCAGTGG
TGAAGGACTATGTGCAGATGAAGGCTCGTGAGCTGCAGCAGGAGCAGGAGACTGAGGGCTCCAGCCTCACTGCCCAGAAG
AGCTCCTGCAAGGATGGCCCCTGTGTGACCAACCGTCTGGAAGGCTGGCTGGCCAGAGCTGAGCGCATGGTGAAAAACAC
CTTCATGCCCACTGATGTGGACCCTGAAGCCTTCGGGCACCAGCACAAGGAGCTTGCAGCC

Alignment

ORF - retro_cfam_632 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.21 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGFWKLSPFLAIGLLVMYQAGILQAAPFRSALENPLESATLTEDEICVLLTAVVKDYVQMKARELQQEQE
          MGFWKLSPFLAIGLLVMYQAGILQAAPFRSALENPLESATLTEDEI.VLLTAVVKDYVQMKARELQQEQE
Retrocopy MGFWKLSPFLAIGLLVMYQAGILQAAPFRSALENPLESATLTEDEIWVLLTAVVKDYVQMKARELQQEQE

Parental  TEGSSLTAQKSSCKDGPCVTNRLEGWLARAERMVKNTFMPTDVDPEAFGHQHKELAA
          TEGSSLTAQKSSCKDGPCVTNRLEGWLARAERMVKNTFMPTDVDPEAFGHQHKELAA
Retrocopy TEGSSLTAQKSSCKDGPCVTNRLEGWLARAERMVKNTFMPTDVDPEAFGHQHKELAA

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	0.04 RPM
SRP017611_brain	0.16 RPM	0.79 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_632 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_632 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_632 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	ENSCAFG00000008550	1 retrocopy	retro_cfam_632 ,