RetrogeneDB ID: retro_rnor_32

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 1:76520724..76522170(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSRNOG00000048095
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Minpp1
• Ensembl ID: ENSRNOG00000011287
• Aliases: None
• Description: multiple inositol polyphosphate phosphatase 1 precursor [Source:RefSeq peptide;Acc:NP_062136]

Sequence

>retro_rnor_32
ATGCTTCGTGGCGCGCACAGCCACCTCTCGGCCTCGGTAGCCCTCGCCGCGGTCCTGGCTGTGGCGCTGCTCTCGTCGTT
CGCGCGCTGCTCTCTCCCGGGGCGCGGGGACCCGGTGGCTTCGGTGCTTAGCCCCTACTTCGGCACGAAGACACGCTATG
AAGATGTCAACCCCTGGCTGCTGGGCGACCCGGTGGCGCCGCGACGGGACCCGGAGCTGCTGGCGGGGACTTGCACCCCG
GTGCAGCTGGTCGCCCTCATCCGTCATGGCACCCGCTACCCTACGACCAAGCAGATCCGCAAGCTGAGGCAGCTGCAGGG
GCTGCTGCAGACCCGCGAGTCCGTAGATGGCGGGAGCCGAGTGGCCGCCGCTCTGGACCAATGGCCGCTGTGGTACGATG
ACTGGATGGACGGGCAGCTGGTGGAAAAGGGGCGGCAGGACATGCGACAGCTGGCCCTGCGTCTGGCCGCCCTCTTCCCT
GACCTCTTCTGCCAGGAGAAGTACGGCCGCCTGAGGCTGATCACCAGCTCCAAGCACCACTGTGTGGACAGCAGCGCCGC
CTTCCTCCAAGGGTTGTGGCAACATTACCACCCAGGATTGCCACCTCCCGACGTCTCAGACATGGAGTGTGACCCTCCGA
GAGTTAATGATAAGCTAATGAGGTTCTTCGATCACTGTGAGAAGTTTTTAACCGAAGTCGAAAGAAACGCCACGGCTCTT
TATCATGTGGAAGCCTTCAAAACCGGGCCAGAAATGCAGACAGTTTTAAAGAAAGTTGCAGCCACTTTGCAAGTGCCAGT
GAACAATTTAAATGCAGACTTAATTCAGGTAGCCTTTTTCACCTGTTCGTTTGACCTGGCAGTTCAAGGTGTCCATTCTC
CCTGGTGCGATGTGTTTGATGTAGATGATGCGAAGGTTCTGGAATACTTAAATGATCTGAAACAGTACTGGAAACGAAGT
TATGGCTATGCCATTAACAGCCGGTCCAGCTGCAACCTGTTTCAGGACATTTTTCTACACCTGGACAAAGCAGTTGAGCA
GAAGCAAAGGTCTCAGCCGGTCTCTTCTCCAGTCATCCTCCAGTTTGGTCATGAGGAGACCCTCCTACCCCTGCTCTCGC
TCATGGGCTACTTCAAGGACAAGGAGCCCCTGACAGCATACAATTTTGAGGAGCAGGTGCATCGCGAGTTCCGAAGTGGT
CACATCGTACCGTATGCTTCAAACCTAATATTTGTGCTTTACCATTGTGAAGACGCACAGACCCCTCAAGAAAAATTCCA
GATACAAATGCTGCTGAATGAAAAGGTGTTACCCTTGGCTCACTCGCAGAAAACTGTTGCCTTGTATGAGGATCTGAAGA
ACCACTACCAGGACATTCTTCAGAGCTGTCAAACTAGTAAAGAATGTAACCTACCCAAGGTGAACATCACATCCGACGAG
CTCTGA

Alignment

ORF - retro_rnor_32 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.54 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLRGARSHLSASVALAAVLAAALLSSFARCSLPGRGDPVASVLSPYFGTKTRYEDVNPWLLGDPVAPRRD
          MLRGA.SHLSASVALAAVLA.ALLSSFARCSLPGRGDPVASVLSPYFGTKTRYEDVNPWLLGDPVAPRRD
Retrocopy MLRGAHSHLSASVALAAVLAVALLSSFARCSLPGRGDPVASVLSPYFGTKTRYEDVNPWLLGDPVAPRRD

Parental  PELLAGTCTPVQLVALIRHGTRYPTTKQIRKLRQLQGLLQTRESVDGGSRVAAALDQWPLWYDDWMDGQL
          PELLAGTCTPVQLVALIRHGTRYPTTKQIRKLRQLQGLLQTRESVDGGSRVAAALDQWPLWYDDWMDGQL
Retrocopy PELLAGTCTPVQLVALIRHGTRYPTTKQIRKLRQLQGLLQTRESVDGGSRVAAALDQWPLWYDDWMDGQL

Parental  VEKGRQDMRQLALRLAALFPDLFCRENYGRLRLITSSKHRCVDSSAAFLQGLWQHYHPGLPPPDVSDMEC
          VEKGRQDMRQLALRLAALFPDLFC.E.YGRLRLITSSKH.CVDSSAAFLQGLWQHYHPGLPPPDVSDMEC
Retrocopy VEKGRQDMRQLALRLAALFPDLFCQEKYGRLRLITSSKHHCVDSSAAFLQGLWQHYHPGLPPPDVSDMEC

Parental  DPPRVNDKLMRFFDHCEKFLTEVERNATALYHVEAFKTGPEMQTVLKKVAATLQVPVNNLNADLIQVAFF
          DPPRVNDKLMRFFDHCEKFLTEVERNATALYHVEAFKTGPEMQTVLKKVAATLQVPVNNLNADLIQVAFF
Retrocopy DPPRVNDKLMRFFDHCEKFLTEVERNATALYHVEAFKTGPEMQTVLKKVAATLQVPVNNLNADLIQVAFF

Parental  TCSFDLAIQGVHSPWCDVFDVDDAKVLEYLNDLKQYWKRSYGYAINSRSSCNLFQDIFLHLDKAVEQKQR
          TCSFDLA.QGVHSPWCDVFDVDDAKVLEYLNDLKQYWKRSYGYAINSRSSCNLFQDIFLHLDKAVEQKQR
Retrocopy TCSFDLAVQGVHSPWCDVFDVDDAKVLEYLNDLKQYWKRSYGYAINSRSSCNLFQDIFLHLDKAVEQKQR

Parental  SQPVSSPVILQFGHAETLLPLLSLMGYFKDKEPLTAYNFEEQVHREFRSGHIVPYASNLIFVLYHCEDAQ
          SQPVSSPVILQFGH.ETLLPLLSLMGYFKDKEPLTAYNFEEQVHREFRSGHIVPYASNLIFVLYHCEDAQ
Retrocopy SQPVSSPVILQFGHEETLLPLLSLMGYFKDKEPLTAYNFEEQVHREFRSGHIVPYASNLIFVLYHCEDAQ

Parental  TPQEKFQIQMLLNEKVLPLAHSQKTVALYEDLKNHYQDILQSCQTSKECNLPKVNITSDEL
          TPQEKFQIQMLLNEKVLPLAHSQKTVALYEDLKNHYQDILQSCQTSKECNLPKVNITSDEL
Retrocopy TPQEKFQIQMLLNEKVLPLAHSQKTVALYEDLKNHYQDILQSCQTSKECNLPKVNITSDEL

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	0.22 RPM	12.22 RPM
SRP017611_kidney	0.07 RPM	31.19 RPM
SRP017611_liver	0.13 RPM	14.86 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_32 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_32 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_32 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013275	4 retrocopies	retro_chof_1750, retro_chof_387, retro_chof_786, retro_chof_796,
Mus musculus	ENSMUSG00000024896	1 retrocopy	retro_mmus_2502,
Oryctolagus cuniculus	ENSOCUG00000002908	1 retrocopy	retro_ocun_1283,
Rattus norvegicus	ENSRNOG00000011287	1 retrocopy	retro_rnor_32 ,