RetrogeneDB ID: retro_rnor_2707

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 9:107855429..107856239(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSRNOG00000011012
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: Bmpr1a
• Ensembl ID: ENSRNOG00000010814
• Aliases: None
• Description: Bone morphogenetic protein receptor type-1A [Source:UniProtKB/Swiss-Prot;Acc:Q78EA7]

Sequence

>retro_rnor_2707
TTTTTTACCACTGAAGAAGCTAGCTGGTGTAGAGAAACAGAAATCTACCAGACGGTGTTAATGCTTCATGAAAATATACT
TGGTTTTATAGCTGCAGACATTAAAGGCACCGGTTCCTGGACTCAGCTGTATTTGATTACTGATTACCATGAGAATGGGT
CTCTCTATGACTTCCTGAAATGTGCCACCCTGGACACCAGAGCCCTACTCAAGTTAGCTTATTCTGCTGCCTGTGGTCTG
TGCCACCTCCACACAGAAATTTATTGCATGCAAGGAAAGCCTGCAATTGCTCATCGAGACCTGAAGAGCAAAAACATCCT
TATTAAGAAAAATGGGAGTTGCTGTATTGCTGACCTGGGCCTAGCTGTTAAATTCAACAGTGACACAAATGAAGTTGACA
TACCTTTGAACACCAGGGTGGGCACCAGGCGCTACATGGCTCCAGAAGTGCTGGACGAGAGCCTGAGTAAAAACCATTTC
CAGCCCTACATCATGGCTGACATCTACAGCTTTGGTTTGATCATTTGGGAGATGGCCCGTCGCTGTATTACAGGAGGAAT
CGTGGAGGAATATCAATTACCATATTACAACATGGTGCCTAGTGACCCATCTTTTGAAGACATGCGTGAGGTTGTGTGTG
TGAAAAGCTTTCGGCCAATCGTGTCTAACTGCTGGAACAGTGATGAATGTCTTCGAGCCGTTTTGAGGCTGATGTCAGAA
TACTGGGCCCATTATCCAGCCTCCAGACTCACAGCTTTGAGAATCAAGAAGACACTCGCAAAGATGGTTGAATCCCAGGA
TGTAAAGATT

Alignment

ORF - retro_rnor_2707 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.93 %
• Parental protein coverage: 50.75 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FFTTEEASWFRETEIYQTVLMRHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDFLKCATLDTRALL
          FFTTEEASW.RETEIYQTVLM.HENILGFIAADIKGTGSWTQLYLITDYHENGSLYDFLKCATLDTRALL
Retrocopy FFTTEEASWCRETEIYQTVLMLHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDFLKCATLDTRALL

Parental  KLAYSAACGLCHLHTEIYGTQGKPAIAHRDLKSKNILIKKNGSCCIADLGLAVKFNSDTNEVDIPLNTRV
          KLAYSAACGLCHLHTEIY..QGKPAIAHRDLKSKNILIKKNGSCCIADLGLAVKFNSDTNEVDIPLNTRV
Retrocopy KLAYSAACGLCHLHTEIYCMQGKPAIAHRDLKSKNILIKKNGSCCIADLGLAVKFNSDTNEVDIPLNTRV

Parental  GTRRYMAPEVLDESLSKNHFQPYIMADIYSFGLIIWEMARRCITGGIVEEYQLPYYNMVPSDPSYEDMRE
          GTRRYMAPEVLDESLSKNHFQPYIMADIYSFGLIIWEMARRCITGGIVEEYQLPYYNMVPSDPS.EDMRE
Retrocopy GTRRYMAPEVLDESLSKNHFQPYIMADIYSFGLIIWEMARRCITGGIVEEYQLPYYNMVPSDPSFEDMRE

Parental  VVCVKRLRPIVSNRWNSDECLRAVLKLMSECWAHNPASRLTALRIKKTLAKMVESQDVKI
          VVCVK..RPIVSN.WNSDECLRAVL.LMSE.WAH.PASRLTALRIKKTLAKMVESQDVKI
Retrocopy VVCVKSFRPIVSNCWNSDECLRAVLRLMSEYWAHYPASRLTALRIKKTLAKMVESQDVKI

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
SRP017611_brain	0.07 RPM	32.64 RPM
SRP017611_kidney	0.00 RPM	54.36 RPM
SRP017611_liver	0.00 RPM	9.88 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_2707 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_2707 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_2707 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000107779	2 retrocopies	retro_hsap_3659, retro_hsap_934,
Gorilla gorilla	ENSGGOG00000003720	1 retrocopy	retro_ggor_2471,
Pan troglodytes	ENSPTRG00000002706	1 retrocopy	retro_ptro_2482,
Rattus norvegicus	ENSRNOG00000010814	1 retrocopy	retro_rnor_2707 ,