RetrogeneDB ID: retro_mmur_235

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_190:94310..95162(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HNRNPK
• Ensembl ID: ENSMICG00000015780
• Aliases: None
• Description: heterogeneous nuclear ribonucleoprotein K [Source:HGNC Symbol;Acc:5044]

Sequence

>retro_mmur_235
ATGGAAACCAAACAGCCAGAGGAAACCTTCCCCAACACTGAAACCAATGGTGAATTTGGTAAACGCCCTGCAGAAGATAT
GGAAGAGGAACAAGCATTTAAAAGGTCTAGAAACACTGATGAGATGGTTGAATTACATATTCTGCTTCAGAGCAAGAATG
CTGGGGCAGTGATTGGAAAAGGAGGCAAGAATATTAAGGCTCTCCGTACTGACTACAATGCCAGTGTTTCAGTCCCAGAC
AGCAGTGGCCCCGAGCGCATATTGAGCATCAGTGCTGATATTGAAACAATTGGAGAAATACTGAAGAAAATCATCCCTAC
CTTGGAAGAGGGCCTGCAGTTGCCATCACCCACTGCAACCAGCCAGCTCCCGCTCGAATCTGATGCTGTGGAATGCTTAA
ATTACCAGCACTATAAAGGAAGCGACTTTGACTGCGTGTTGAGACTGTTGATTCATCAGAGTCTGGCAGGAGGAATTATT
GGGGTCAAAGGTGCTAAAATCAAAGAACTTCGTGAGAACACTCAAACAACAATCAAGCTTTTCCAGGAATGCTGTCCTCA
TTCCACTGACAGAGTCGTTCTTATTGGAGGAAAACCTGATAGGGTTGAAGAGTGCATAAAGATCATTCTTGATCTTATAT
CGGAGTCTCCCATCAAAGGACGTGCACAGCCTTATGATCCCAATTTTTACGATGAAACTTATGATTATGGTGGTTTTACA
ATGATGTTTGATGACCGCCGTGGACGGCCTGTAGGATTTCCAATGCGGGGAAGAGGTGGTTTTGACAGAATGCCTCCTGG
TGGGGATGGGCATCCCATGCCTCCGTCTAGAAGAGATTATGATGATATGGCC

Alignment

ORF - retro_mmur_235 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.49 %
• Parental protein coverage: 72.46 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  METEQPEETFPNTETNGEFGKRPAEDMEEEQAFKRSRNTDEMVELRILLQSKNAGAVIGKGGKNIKALRT
          MET.QPEETFPNTETNGEFGKRPAEDMEEEQAFKRSRNTDEMVEL.ILLQSKNAGAVIGKGGKNIKALRT
Retrocopy METKQPEETFPNTETNGEFGKRPAEDMEEEQAFKRSRNTDEMVELHILLQSKNAGAVIGKGGKNIKALRT

Parental  DYNASVSVPDSSGPERILSISADIETIGEILKKIIPTLXXGLQLPSPNATSQLPLESDAVECLNYQHYKG
          DYNASVSVPDSSGPERILSISADIETIGEILKKIIPTL..GLQLPSP.ATSQLPLESDAVECLNYQHYKG
Retrocopy DYNASVSVPDSSGPERILSISADIETIGEILKKIIPTLEEGLQLPSPTATSQLPLESDAVECLNYQHYKG

Parental  SDFDCELRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKLFQECCPHSTDRVVLIGGKPDRVVECIKIIL
          SDFDC.LRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKLFQECCPHSTDRVVLIGGKPDRV.ECIKIIL
Retrocopy SDFDCVLRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKLFQECCPHSTDRVVLIGGKPDRVEECIKIIL

Parental  DLISESPI--RAQ-YDP-FYDE---YDVFTMMFDDGR---VGFPMR-RGG-DRMPPGRGGR-MPPSRRDY
          DLISESPI..RAQ.YDP.FYDE...Y..FTMMFDD.R...VGFPMR.RGG.DRMPPG..G..MPPSRRDY
Retrocopy DLISESPIKGRAQPYDPNFYDETYDYGGFTMMFDDRRGRPVGFPMRGRGGFDRMPPGGDGHPMPPSRRDY

Parental  DDMS
          DDM.
Retrocopy DDMA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_235 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_235 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 14 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021131	2 retrocopies	retro_btau_468, retro_btau_605,
Homo sapiens	ENSG00000165119	3 retrocopies	retro_hsap_2323, retro_hsap_2674, retro_hsap_3385,
Microcebus murinus	ENSMICG00000011651	2 retrocopies	retro_mmur_1226, retro_mmur_1228,
Microcebus murinus	ENSMICG00000015780	3 retrocopies	retro_mmur_1562, retro_mmur_235 , retro_mmur_448,
Myotis lucifugus	ENSMLUG00000005871	2 retrocopies	retro_mluc_128, retro_mluc_561,
Macaca mulatta	ENSMMUG00000018871	1 retrocopy	retro_mmul_2111,
Monodelphis domestica	ENSMODG00000008402	1 retrocopy	retro_mdom_1666,
Mus musculus	ENSMUSG00000021546	2 retrocopies	retro_mmus_1131, retro_mmus_2137,
Otolemur garnettii	ENSOGAG00000007478	3 retrocopies	retro_ogar_2635, retro_ogar_2966, retro_ogar_3086,
Pongo abelii	ENSPPYG00000019327	3 retrocopies	retro_pabe_2105, retro_pabe_2106, retro_pabe_42,
Sarcophilus harrisii	ENSSHAG00000017109	1 retrocopy	retro_shar_820,
Tupaia belangeri	ENSTBEG00000001289	1 retrocopy	retro_tbel_2491,
Tursiops truncatus	ENSTTRG00000004906	1 retrocopy	retro_ttru_1622,
Tursiops truncatus	ENSTTRG00000016693	7 retrocopies	retro_ttru_1144, retro_ttru_180, retro_ttru_1922, retro_ttru_444, retro_ttru_813, retro_ttru_930, retro_ttru_937,