RetrogeneDB ID: retro_rnor_215

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 3:84372722..84373658(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSRNOG00000028809
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Olr674
• Ensembl ID: ENSRNOG00000046674
• Aliases: None
• Description: None

Sequence

>retro_rnor_215
ATGCAAAACCAGAGTTCTGTTACTGAGTTCATAATCTTGGGGCTTTCTCAGAACCCAAAAGTTGAAAAAATATTGTTTGT
TGTATTTTTATTGGTCTATTTGGCAACTGTAGGGGGCAACATGATTATTGTGGTGACCATCATGTACAGCCCTGCACTGC
TGGGCTGTCCCATGTACTTCTTTTTGGCATTCCTGTCCTTTCAAGATGCATGTGTCTCTTCTACAGTTACACCCAAGATG
ATTGTAGACTTCTTACACGAGAAGAAGACCATTTCCTTTGGCTGGTGTATGACACAACTGTTTTCAGTCCATTTCTTCTC
AGGGGCAGAAATGATTATCCTGGCTGTCATGGCCTATGACCGCTATGTGGCTATTTGCAAGCCTTTGCACTACTCTTCCA
TTCTTACCCGGAGGCTCTGCAGCATTTTGGTAGCAATATCCTGGGCAGGGGGCTTCTTGCACGCTATCATACAAATTATA
TTCACATTGCAGCTGCCTTTCTGTGGACCCAATGTCATTGATCATTACATGTGTGACTTGTTTCCATTGCTAAAACTTGC
CTGCACTGACACTCATATATTTGTTCTTTTGATATTTGCAAACAGTGGTGCTATTTGCATCATAATCTTCTCCCTGTTGC
TTGTTTCCTATGGTGTCATTTTGTTCTCTCTGAGAGCCCACAGTTCTGAAGGTCGACGGAAAGCTCTTTCCACCTGTGGA
GCCCACATTACTGTTGTGGTTTTGTTCCTTGTTCCATGCATCTTAATATATGCACGGGATACATCTGCATTCTCCTTTGA
GAAGGACACACTTTTATTTGTCAATGTCCTGACACCACTCTTCAATCCTATGGTTTACACTTTCAGGAATAAGGAAATGA
TAAATGCCATCAGGAAAATGTGGAAGAGGCTAATAGTGGTTTTGGTTAGATATTAG

Alignment

ORF - retro_rnor_215 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.97 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQNQSFVTEFILLGLSQNVNVEKMLLVLFLFIYLSTIVGNMIIVVTIIYSPILLGSPMYFFLIFLSLLDA
          MQNQS.VTEFI.LGLSQN..VEK.L.V.FL..YL.T..GNMIIVVTI.YSP.LLG.PMYFFL.FLS..DA
Retrocopy MQNQSSVTEFIILGLSQNPKVEKILFVVFLLVYLATVGGNMIIVVTIMYSPALLGCPMYFFLAFLSFQDA

Parental  FTSSTVTPKIIIDCFYERKTICFECCMTQLFAVHFFTGAEVIVLSAMAYDRYVAICKPLHYSSIMTQRLS
          ..SSTVTPK.I.D...E.KTI.F..CMTQLF.VHFF.GAE.I.L..MAYDRYVAICKPLHYSSI.T.RL.
Retrocopy CVSSTVTPKMIVDFLHEKKTISFGWCMTQLFSVHFFSGAEMIILAVMAYDRYVAICKPLHYSSILTRRL-

Parental  CGILVAISWAGGFLHSIIQIIFTLQLPLCGPNIIDHYTCDLFPLLKLACTDTHIFVILVFANSGAICIII
          C.ILVAISWAGGFLH.IIQIIFTLQLP.CGPN.IDHY.CDLFPLLKLACTDTHIFV.L.FANSGAICIII
Retrocopy CSILVAISWAGGFLHAIIQIIFTLQLPFCGPNVIDHYMCDLFPLLKLACTDTHIFVLLIFANSGAICIII

Parental  FSMLLVSYGVILFTLRAHSYEGRRKALSTCGAHITVVVLFLVPCILIYARDTSAFSFEKDTLLFVNVLTP
          FS.LLVSYGVILF.LRAHS.EGRRKALSTCGAHITVVVLFLVPCILIYARDTSAFSFEKDTLLFVNVLTP
Retrocopy FSLLLVSYGVILFSLRAHSSEGRRKALSTCGAHITVVVLFLVPCILIYARDTSAFSFEKDTLLFVNVLTP

Parental  LLNPMVYTFRNKEMINAIRKMWKRLIVVFVRY
          L.NPMVYTFRNKEMINAIRKMWKRLIVV.VRY
Retrocopy LFNPMVYTFRNKEMINAIRKMWKRLIVVLVRY

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	0.00 RPM	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_215 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_215 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_215 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Rattus norvegicus	ENSRNOG00000006819	3 retrocopies	retro_rnor_328, retro_rnor_343, retro_rnor_344,
Rattus norvegicus	ENSRNOG00000046433	1 retrocopy	retro_rnor_1896,
Rattus norvegicus	ENSRNOG00000046674	1 retrocopy	retro_rnor_215 ,
Rattus norvegicus	ENSRNOG00000050195	1 retrocopy	retro_rnor_72,