RetrogeneDB ID: retro_mmur_1469

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_6550:8507..9728(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: G3BP1
• Ensembl ID: ENSMICG00000012235
• Aliases: None
• Description: GTPase activating protein (SH3 domain) binding protein 1 [Source:HGNC Symbol;Acc:30292]

Sequence

>retro_mmur_1469
GAAATCCATAGGAAAGTGATGTCACAAAACTTCGCCAACTGCCACACCAAGATTCGCCATGCTGATGCTCATGCCACTCT
GAATGATGCTGTGGTGGTCCAGGTGATGGGGCTTCTCTCTAATAACAACCAGGCTTTGAGGAGATTCATGCAGACGTCTG
TCCTTGCTCCTGAGGGCTCTGTTGCAAATAAGTTCTATGTTCACAATGATATCTTCAGATACCAAGATGAGGTCTTTGTT
GGCTTTGTCACTGAGCCTCGGGAGGAATCTGAGGAAGAAGTAGCGGAACCTGAAGAAAGACAGCAGATGCCTAAAGTGGT
TATTGATGATTCTGGAACTTTCTATGATCAGACTGTTGTCAGTAATGACATGGAAGAACATTTAGAGGAGCCTGTTGCTG
AACCAGAGCCTGATCCTGAACCAGAACCAGAGCAAGAACCTGTATCTGAAATCCAAGAGGAAAAGTCTGAGCCAGTATTA
GAAGAAACTTCTCCTGAGGATACTCAGAAGAGTTCTTCTCCAGCACCTGCAGACATAGCTCAAACAGTTTAGGAAGACTT
GAAGACTTTTCCTTTGGCATCTGTGACCAGTAAGAACCTTCCACCCAGTGGAGCTGTTCCGGTTACTGGGATACCACCTC
ATGTTGTTAAAGTACCAGATTCACAGCCTCGTCCAGAGTCTAAGCCTGAATCTCAGATTCCACCACGGAGACCTCAGAGG
GATCAAAAAGTTTGAGAACAATGAATAAATATTCCTCCCCAGAGAGGCCCCAGACCAATTCGTGAGGCTGGTGAGCAAGG
TGATGTTGAACTCCGAAGAATTATGAGACACCCTGACAGTCATCAACTTTTCATTGGCAACCTGCCTCATGAGGTGGACA
AATCAGAGCTTAAAGATTTCTTTCAAAGCTATGGGAATGTGGTGGAGCTGCACATTAACAGCGGTGGGAAGTTACCCAAT
TTTGGTTTTGTTGTGTTTGATGATTCTGAGCCTGTTCAGAAGGTCCTTAGCAACAGGCCCATCATGTTCAGAGGTGAGGT
CCGTCTGAATGTGGAAGAGAAGAAGACTTGAGCTGCCAGGGAAGGGGACCGTCGAGATAACCACGTGTGGGGACCTGGAG
ACCCTCGAGGTGGGCTGGGTGGTGGAATGAGAGGCCCTCCCCGAGGAGGCATTGTGCAAAAACCAGGATTTGGAGTGGGA
AGGGGGATTGCTCCAAGGCAG

Alignment

ORF - retro_mmur_1469 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.68 %
• Parental protein coverage: 87.34 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EIHRKVMSQNFTNCHTKIRHVDAHATLNDGVVVQVMGLLSNNNQALRRFMQTFVLAPEGSVANKFYVHND
          EIHRKVMSQNF.NCHTKIRH.DAHATLND.VVVQVMGLLSNNNQALRRFMQT.VLAPEGSVANKFYVHND
Retrocopy EIHRKVMSQNFANCHTKIRHADAHATLNDAVVVQVMGLLSNNNQALRRFMQTSVLAPEGSVANKFYVHND

Parental  IFRYQDEVFGGFVTEPQEESEEEVEEPEERQQTPEVVPDDSGTFYDQTVVSNDMEEHLEEPVAEPEPDPE
          IFRYQDEVF.GFVTEP.EESEEEV.EPEERQQ.P.VV.DDSGTFYDQTVVSNDMEEHLE...........
Retrocopy IFRYQDEVFVGFVTEPREESEEEVAEPEERQQMPKVVIDDSGTFYDQTVVSNDMEEHLEXXXXXXXXXXX

Parental  PEPEQEPVSEIQEEKSEPVLEETPPEDTQKSSSPAPADIAQTVQEDLRTFSWASVTSKNLPPSGAVPVTG
          ..PEQEPVSEIQEEKSEPVLEET.PEDTQKSSSPAPADIAQTV.EDL.TF..ASVTSKNLPPSGAVPVTG
Retrocopy XXPEQEPVSEIQEEKSEPVLEETSPEDTQKSSSPAPADIAQTV*EDLKTFPLASVTSKNLPPSGAVPVTG

Parental  IPPHVVKVPASQPRPESKPESQIPPQRPQRDQRVREQRINIPPQRGPRPIREAGEQGDVEPRRIVRHPDS
          IPPHVVKVP.SQPRPESKPESQIPP.RPQRDQ.V.EQ.INIPPQRGPRPIREAGEQGDVE.RRI.RHPDS
Retrocopy IPPHVVKVPDSQPRPESKPESQIPPRRPQRDQKV*EQ*INIPPQRGPRPIREAGEQGDVELRRIMRHPDS

Parental  HQLFIGNLPHEVDKSELKDFFQSYGNVVELRINSGGKLPNFGFVVFDDSEPVQKVLSNRPIMFRGEVRLN
          HQLFIGNLPHEVDKSELKDFFQSYGNVVEL.INSGGKLPNFGFVVFDDSEPVQKVLSNRPIMFRGEVRLN
Retrocopy HQLFIGNLPHEVDKSELKDFFQSYGNVVELHINSGGKLPNFGFVVFDDSEPVQKVLSNRPIMFRGEVRLN

Parental  VEEKKTRAAREGDRRDNRLRGPGGPRGGLGGGMRGPPRGGMVQKPGFGVGRGIAPRQ
          VEEKKT.AAREGDRRDN...GPG.PRGGLGGGMRGPPRGG.VQKPGFGVGRGIAPRQ
Retrocopy VEEKKT*AAREGDRRDNHVWGPGDPRGGLGGGMRGPPRGGIVQKPGFGVGRGIAPRQ

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_1469 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1469 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 12 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000006626	2 retrocopies	retro_cpor_1119, retro_cpor_464,
Dasypus novemcinctus	ENSDNOG00000018758	3 retrocopies	retro_dnov_1492, retro_dnov_1632, retro_dnov_526,
Homo sapiens	ENSG00000145907	1 retrocopy	retro_hsap_2322,
Microcebus murinus	ENSMICG00000012235	2 retrocopies	retro_mmur_1247, retro_mmur_1469 ,
Mustela putorius furo	ENSMPUG00000013661	1 retrocopy	retro_mputfur_625,
Oryctolagus cuniculus	ENSOCUG00000022143	1 retrocopy	retro_ocun_1352,
Otolemur garnettii	ENSOGAG00000001726	2 retrocopies	retro_ogar_3156, retro_ogar_3183,
Pongo abelii	ENSPPYG00000015968	1 retrocopy	retro_pabe_2104,
Pan troglodytes	ENSPTRG00000017438	1 retrocopy	retro_ptro_1696,
Pteropus vampyrus	ENSPVAG00000017250	2 retrocopies	retro_pvam_1188, retro_pvam_188,
Rattus norvegicus	ENSRNOG00000013186	1 retrocopy	retro_rnor_1282,
Tarsius syrichta	ENSTSYG00000004570	1 retrocopy	retro_tsyr_1391,