RetrogeneDB ID: retro_mmur_1204

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_322:26061..27124(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SDAD1
• Ensembl ID: ENSMICG00000006682
• Aliases: None
• Description: SDA1 domain containing 1 [Source:HGNC Symbol;Acc:25537]

Sequence

>retro_mmur_1204
TTCCTCTTTAGCTTCCATCCCTTTGTGCAAAGGTTTCTGCAGCCCCAACAAAGAGAATAACAAAGATTATTCTGTTTGCT
ATGTAAGCATCTCACCCCCTTGTACCCCCAGAGATAGTTCAGTCACTGCTCATGACTGCACTAACAATGTCGTTACTGAC
AAGAACTCTGGGGCAGTCATGACAGTCAGAATCAATGTGATAAAAGAGATAACAGCTCTATGTCCTCTCGCCATGACTGA
AGAACTTCTCCAAGTCCTGGCTCAGTATGAAACATAGAAAGATAAGAAGGTCATGATGTCTGCTAGAACTTTGATTCAGG
TTTTCTGGACACTGAATCCTCAGATGCTGCAGAAGAAATTCTGCGGTGAACCTACAGAGGCCTCCATAGAGGTTAAGAGT
ACAAGAATATAGAGAAATAGATGCTAAAGATGATATTCCAGGAGTAGAAGTTCTGGGAGCTGAAAAAGAAGAGATTCTGA
GAACAATGAAGATGGATGGGAAAGTCCAGTGTCAGTGAGAAGGAGGAGGATGCCGGTGGTGAATGGGTTGGTGTGCACCA
CTCTTCTCATGAAGAACAAGAAATTTCCAAGAACCTGAACAGCATGCCCATGGTGGGGTGGAAAGCCAAAGCTACCGCCA
TCAGCACTAGTCACCTTTTAACTCAGGAAGACTCCAGAGATTCTGTGTGGCCCAAATGAGGAACGAACTTGACCTGCCCT
CAGGAAATCCCAGAAGAGAAAATATACGGAAAGACACAGGGCTGAGGAGCCCAGGGGCAGATTACTTTTACTTTGGGATG
TTGAACTCCTTCATAAAAAGCCAAAATCTGACAAGGAGACAAGGCTGGCAACTGCAATGACTGGAAAGACAGACTGAAAA
GAATAAGTGAGGAGGAAAATGAAAATGAATCCATTTTCCACTTCCACAAAGAGAAGGAAAAAACAAAAGAACTTTATGAT
GACGTGGTATAGCCAGAATGTCCTCTCAAAAAATAAGCATTCCTTCTGCAAAAAGCAGCTGGTGCCACAAGATGCACTTT
TGAAAAAGAGAAAAAGAATGAAG

Alignment

ORF - retro_mmur_1204 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.77 %
• Parental protein coverage: 57.31 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  FLFNFYPFVQRFLQPHQRE-VTKILLFAAQASHHLVPPEIIQSLLLTV-ANNFVTDKNSGEVMTVGINAI
          FLF.F.PFVQRFLQP.QRE..TKI.LFA..ASH.LVPPEI.QSLL.T...NN.VTDKNSG.VMTV.IN.I
Retrocopy FLFSFHPFVQRFLQPQQRE<ITKIILFAM*ASHPLVPPEIVQSLLMTA<TNNVVTDKNSGAVMTVRINVI

Parental  KEITARCPLAMTEELLQDLAQYNTHKDKNVMMSARTLIQLFRTLNPQMLQKKFRGKPTEASIEA-RLQEY
          KEITA.CPLAMTEELLQ.LAQY.T.KDK.VMMSARTLIQ.F.TLNPQMLQKKF.G.PTEASIE..R.QEY
Retrocopy KEITALCPLAMTEELLQVLAQYET*KDKKVMMSARTLIQVFWTLNPQMLQKKFCGEPTEASIEV>RVQEY

Parental  -EFTVKNHTSVPEIVNIKHNE-NNEN---GWES-TSLSE-EEEADGEWVDVHHSSDEEQQEISRKLDNMP
          .E...K......E.......E...EN...GWES..S.SE.EE.A.GEWV.VHHSS.EE.QEIS..L..MP
Retrocopy REIDAKDDIPGVEVLGAEKEE<DSENNEDGWES<SSVSEKEEDAGGEWVGVHHSSHEE-QEISKNLNSMP

Parental  VEERKAKAAAISTSRVLTQED-FQKIRMAQMRKELDAAPG-KSQKRKYVDIDSDEEPRGELLSLRDIERL
          ....KAKA.AISTS..LTQED..Q....AQMR.ELD...G.KSQKRKY......EEPRG.LL.L.D.E.L
Retrocopy MVGWKAKATAISTSHLLTQED<LQRFCVAQMRNELDLPSG<KSQKRKYTERHRAEEPRGRLLLLWDVELL

Parental  HKKPKSDKETRLATAMAGKTDRKEFVRKKTKMNPFSSSTNKEKKKQKNFMMMRYSQNVRSKTKRSFREKQ
          HKKPKSDKETRLATAM.GKTD.KE.VR.K.KMNPFS.ST.K..KKQKNFMM..YSQNV.SK.K.SF..KQ
Retrocopy HKKPKSDKETRLATAMTGKTD*KE*VRRKMKMNPFSTST-KRRKKQKNFMMTWYSQNVLSKNKHSFCKKQ

Parental  LALRDALLKKRKRMK
          L...DALLKKRKRMK
Retrocopy LVPQDALLKKRKRMK

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_1204 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1204 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008521	2 retrocopies	retro_cfam_1211, retro_cfam_515,
Echinops telfairi	ENSETEG00000004811	2 retrocopies	retro_etel_1946, retro_etel_779,
Gorilla gorilla	ENSGGOG00000006441	1 retrocopy	retro_ggor_1498,
Loxodonta africana	ENSLAFG00000012217	1 retrocopy	retro_lafr_980,
Microcebus murinus	ENSMICG00000006682	1 retrocopy	retro_mmur_1204 ,
Macaca mulatta	ENSMMUG00000017503	1 retrocopy	retro_mmul_604,
Nomascus leucogenys	ENSNLEG00000027034	1 retrocopy	retro_nleu_2410,
Rattus norvegicus	ENSRNOG00000022229	2 retrocopies	retro_rnor_1381, retro_rnor_1967,
Sus scrofa	ENSSSCG00000008974	1 retrocopy	retro_sscr_571,