RetrogeneDB ID: retro_mmur_376

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_2693:357510..358068(-)
• Located in intron of: ENSMICG00000017235

Retrocopy information

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

Parental gene information

• Parental gene symbol: EXTL2
• Ensembl ID: ENSMICG00000005233
• Aliases: None
• Description: exostosin-like glycosyltransferase 2 [Source:HGNC Symbol;Acc:3516]

Sequence

>retro_mmur_376
CACATCTTCAAACTTCCTGGAGAGTAATGAGGACCTGAGTGCTTTGCTTCCTTTTGGTGGTCATCTCGTGTTACTACTGG
TAGCTAACGCTTTGACCACTTCCCTTCCCAACAGCAACAAAGACAAGATGCTCATGTTGCACAGGGGCATACAATCCCAG
GGCAAGTCCGCCCTGGATTCCACTATTTTTATGATGCAGATGTACAACAGAACGGATCTTTTATTGAGACTTTTAAATCT
TTATCAGGCAGTACCACATGTGCACAAAGTGGTTATGGTGTGGAGCAATATTGGGAGAAGGGACCAGACAAGTTACGGAA
TTCTCTAGGGCTTCACCCTGTCCCTGTGATCTTCGAACAACAGATGGCAAACAGAATGAGAAATCAACTCCAGGTCTTCC
CTGAACTGGAAAACAACGCAGTGTTAATAGCAGATGATGACACGCTCATTAGTGCCCAGGACCTCGTTTTTGCTTTCTCA
GTTTGGCAGCAATTTCCTGACCAAATTGTAAGATTTGTTCCTAGAAATCATGTCTCTACTTCATCAAGTAACTACAGT

Alignment

ORF - retro_mmur_376 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.89 %
• Parental protein coverage: 58.26 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  HICKLPG-RVMGIRVLRFSLVVI-LVLLLVAGALTTLLPNIKEDKMLMLRRDIKSQGKSTLDSFTLIMQT
          HI.KLPG.RVM...VL.F.LVVI.LVLLLVA.ALTT.LPN...DKMLML.R.I.SQGKS.LDS....MQ.
Retrocopy HIFKLPG<RVMRT*VLCFLLVVI<LVLLLVANALTTSLPNSNKDKMLMLHRGIQSQGKSALDSTIFMMQM

Parental  YNRTDLLLRLLNHYQAVPHLHKVIVVWNNIG-EKGPDELWNSLGPHPIPVIFKQQTANRMRNRLQVFPEL
          YNRTDLLLRLLN.YQAVPH.HKV..VW.NIG.EKGPD.L.NSLG.HP.PVIF.QQ.ANRMRN.LQVFPEL
Retrocopy YNRTDLLLRLLNLYQAVPHVHKVVMVWSNIG<EKGPDKLRNSLGLHPVPVIFEQQMANRMRNQLQVFPEL

Parental  ETNAVLMVDDDTLISAQDLVFAFSVWQQFPDQIVGFVPRKHVSTSSGIYS
          E.NAVL..DDDTLISAQDLVFAFSVWQQFPDQIV.FVPR.HVSTSS..YS
Retrocopy ENNAVLIADDDTLISAQDLVFAFSVWQQFPDQIVRFVPRNHVSTSSSNYS

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_376 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_376 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000020002	1 retrocopy	retro_cfam_1594,
Microcebus murinus	ENSMICG00000005233	1 retrocopy	retro_mmur_376 ,