RetrogeneDB ID: retro_mmur_890

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_12146:9081..9579(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SSU72
• Ensembl ID: ENSMICG00000011016
• Aliases: None
• Description: SSU72 RNA polymerase II CTD phosphatase homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:25016]

Sequence

>retro_mmur_890
AAAGGCATCAACGTCCGTTCCTTTGCAGCCGGATCGTGTGTCAAGCTCCCGGGACGCAGACCCCATCTGCCCGTGGTTTA
TGATTTTGCCACAACCTATCGACAGATGTACGACGACCTGGTCAGGAAAGACAGAGAGTTCTACACACACAATGGCATCT
TACACATCTTGAGAAGGAACGAGAGGATCAAGGCCCGTGCAGAGAGGTTTCAGGAGTGCACCGACTGCTTCGACGTCATC
TTCACCTGCGAGGAGAGTGTCTACGACAAGGTGGTGGAGCACCTGTGCTCCAGGGAAGAGGAGACCCTGCAGCCGGTGCA
CGTGATCAACGTGGAGGTGGAAGACGACCCGGAAGGTGCCATGCTGGGGGCGTTCCTCATCTGCGAGCTGTGCCAGGGCC
TGCAGCAGCTGGCCGACACGCAGGACCAGATGGGCCGGATGCTCCTGCAAGTGGAGGAGAGAACGGGGAAGAGTTTTCTT
CACACCGTCTGCTTCTAC

Alignment

ORF - retro_mmur_890 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.05 %
• Parental protein coverage: 99.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RGFSVRSFGTGTHVKLPGPAPDKPNVYDFKTTYDQMYNDLLRKDKELYTQNGILHMLDRNKRIKPRPERF
          .G..VRSF..G..VKLPG..P..P.VYDF.TTY.QMY.DL.RKD.E.YT.NGILH.L.RN.RIK.R.ERF
Retrocopy KGINVRSFAAGSCVKLPGRRPHLPVVYDFATTYRQMYDDLVRKDREFYTHNGILHILRRNERIKARAERF

Parental  QNCKDLFDLILTCEERVYDQVVEDLNSREQETCQPVHVVNVDIQDNHEEATLGAFLICELCQCIQHTEDM
          Q.C.D.FD.I.TCEE.VYD.VVE.L.SRE.ET.QPVHV.NV...D..E.A.LGAFLICELCQ..Q...D.
Retrocopy QECTDCFDVIFTCEESVYDKVVEHLCSREEETLQPVHVINVEVEDDPEGAMLGAFLICELCQGLQQLADT

Parental  ENEIEELLQEFEEKSGRTFLHTVCFY
          .......L...EE..G..FLHTVCFY
Retrocopy QDQMGRMLLQVEERTGKSFLHTVCFY

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_890 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_890 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.

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013736	3 retrocopies	retro_amel_1930, retro_amel_292, retro_amel_84,
Erinaceus europaeus	ENSEEUG00000010799	1 retrocopy	retro_eeur_648,
Felis catus	ENSFCAG00000003318	1 retrocopy	retro_fcat_54,
Microcebus murinus	ENSMICG00000011016	5 retrocopies	retro_mmur_1057, retro_mmur_1081, retro_mmur_1353, retro_mmur_890 , retro_mmur_891,
Mustela putorius furo	ENSMPUG00000014394	2 retrocopies	retro_mputfur_108, retro_mputfur_1408,
Sarcophilus harrisii	ENSSHAG00000009747	1 retrocopy	retro_shar_32,
Tupaia belangeri	ENSTBEG00000010136	3 retrocopies	retro_tbel_1675, retro_tbel_2435, retro_tbel_2704,