RetrogeneDB ID: retro_mmur_792

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_876:66..925(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TUBB4B
• Ensembl ID: ENSMICG00000010939
• Aliases: None
• Description: tubulin, beta 4B class IVb [Source:HGNC Symbol;Acc:20771]

Sequence

>retro_mmur_792
ATAAGGGAAATTGTGCACATCCAGGCTAGTCAGGTGGCAACCAGATCAGTGCCAAATTGGTAGGAGGTGAGCAGTGATAA
GCACAGCGTGGAGCCCCCACTACCTACCACAGAGACAGCGACCTATGGCTGGACCACATCTCTGTGTACTACAATGAAGC
CACAGGGGGCAGAAATGTTCCTTGTGCTATGCTGGTGGATCTAGAACTTGGGACCATGGACTCTGTTCACGCAGGTCTTT
CTGGATTTCAGACCAGACAACTCTGTTTTTGCTCAGTTGGGCAGACAACAGCTGGGCCAAGGGCCAAGACACAGAGGGGG
CTGATTTTGTCCTGTACATGGTGGGGAAGAGGGCCCAGAGCTGGAACTGCCTGCAGGCCTACCAGCTGACCCCTTCACTG
GGCGGGACAGGGGCTCTGGAACAGGTACCATCCTCTTCAGCAAGATGTGGGAAGGGTATCCTGATGCATCATGACCACCT
TCAGTGTGATGCCCTCACCCAAAGGGTCTGACACCATGGCTGAGGCCTAGGACGCCACCCTCTCCATCCATCTGTTGTAG
AGAACACTGATGAGACCTACTGCATTGACAACAAAGCCCTTTAGTACATCTGCTTCTGCAGCCTCAAGCTGACCATGGCG
ATCCACGAGGACCTGAACTACCTCATCTCAGCCACCGTGAGCAGGGTCACCACCTGCCTCTACTTCCCTGGCCAGCTCAA
CACTGACCTCCACCAGCTGGCAGTCAACAGGGTACCCTTCCCACTTCTCCACTTATTCATGCCAGGCCTTGTCCCTCTCG
CCAGCCATGGAAGCCAGCAGCACTGAGCTCTCACCTTGCCAGGACTCACCCTGCAGGTC

Alignment

ORF - retro_mmur_792 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.0 %
• Parental protein coverage: 65.84 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  MREIVHLQAGQC-GNQIGAKFW-EVISDEHGIDPT-GTYHGDSDLQLERINVYYNEATGGKYVPRAVLVD
          .REIVH.QA.Q..GNQI.AK...EV.SD.H...P...TYH.DSDL.L..I.VYYNEATGG..VP.A.LVD
Retrocopy IREIVHIQASQV<GNQISAKLV>EVSSDKHSVEPP<TTYHRDSDLWLDHISVYYNEATGGRNVPCAMLVD

Parental  LEPGTMDSVRSGPFGQIFRPDNFVFGQSG-AGNNWAKGHYTEGAELVDSVLDVVRKEAESCDCLQGFQLT
          LE.GTMDSV..G..G..F......F...G.A.N.WAKG..TEGA...D.VL..V.K.A.S..CLQ..QLT
Retrocopy LELGTMDSVHAGLSG--FQTRQLCFCSVG<ADNSWAKGQDTEGA---DFVLYMVGKRAQSWNCLQAYQLT

Parental  HSLGG-GTGSGMGTLLISKIREEYPDR-IMNTFSVVPSPKVSDTVVEPYNATLSVHQL-VENTDETYCID
          .SLGG...GSG.GT.L.SK..E.YPD..IM.TFSV.PSPK.SDT..E...ATLS.H.L.VENTDETYCID
Retrocopy PSLGG<DRGSGTGTILFSKMWEGYPDA<IMTTFSVMPSPKGSDTMAEA*DATLSIHLL<VENTDETYCID

Parental  NEALYDICFRTLKLTTPTYGDLNHLVSATMSGVTTCLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPL
          N.AL..ICF..LKLT.....DLN.L.SAT.S.VTTCL.FPGQLN.DL..LAVN.VPFP.LH.FMPG..PL
Retrocopy NKAL*YICFCSLKLTMAIHEDLNYLISATVSRVTTCLYFPGQLNTDLHQLAVNRVPFPLLHLFMPGLVPL

Parental  TSRGSQQYRALTVPELTQQM
          .S.GSQQ..ALT.P.LT.Q.
Retrocopy ASHGSQQH*ALTLPGLTLQV

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_792 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_792 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 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000011966	1 retrocopy	retro_cpor_497,
Microcebus murinus	ENSMICG00000010939	1 retrocopy	retro_mmur_792 ,
Macaca mulatta	ENSMMUG00000012164	2 retrocopies	retro_mmul_1849, retro_mmul_2533,
Monodelphis domestica	ENSMODG00000017213	1 retrocopy	retro_mdom_117,
Mus musculus	ENSMUSG00000036752	2 retrocopies	retro_mmus_158, retro_mmus_422,
Otolemur garnettii	ENSOGAG00000005927	2 retrocopies	retro_ogar_3410, retro_ogar_3450,
Pan troglodytes	ENSPTRG00000023373	2 retrocopies	retro_ptro_2403, retro_ptro_3166,
Rattus norvegicus	ENSRNOG00000010170	2 retrocopies	retro_rnor_742, retro_rnor_867,