RetrogeneDB ID: retro_mmur_625

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4266:469398..469620(+)
• Located in intron of: ENSMICG00000005740

Retrocopy information

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

Parental gene information

• Parental gene symbol: SNRPG
• Ensembl ID: ENSMICG00000015369
• Aliases: None
• Description: small nuclear ribonucleoprotein polypeptide G [Source:HGNC Symbol;Acc:11163]

Sequence

>retro_mmur_625
ATGAGCAAAGCTCACCTTTCGAACTGCAAAAATTTATGGACAAGAAGTTATCACCGAAAATTAAATGGTGGCAGACATGT
CCAAGGAATATTATGGATATTTGATCCTTTTACAAATCTTGTGATGGATGAATGTGTGGAGATGGCAACCAGTGGGCAAC
AGAACAATACTGGAATGGTGGTAACAAGAGGAAACAGTATCCTCGGGATACAAGCCTGGGAA

Alignment

ORF - retro_mmur_625 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.95 %
• Parental protein coverage: 97.37 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSKAH-PPELKKFMDKKLS-LKLNGGRHVQGILRGFDPFMNLVIDECVEMATSGQQNNIGMVVIRGNSII
          MSKAH.P.EL.KFMDKKLS..KLNGGRHVQGIL..FDPF.NLV.DECVEMATSGQQNN.GMVV.RGNSI.
Retrocopy MSKAH<PFELQKFMDKKLS>RKLNGGRHVQGILWIFDPFTNLVMDECVEMATSGQQNNTGMVVTRGNSIL

Parental  MLEALE
          ...A.E
Retrocopy GIQAWE

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_625 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_625 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 31 parental genes, and 273 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016000	9 retrocopies	retro_amel_1577, retro_amel_1618, retro_amel_1671, retro_amel_1795, retro_amel_186, retro_amel_466, retro_amel_563, retro_amel_747, retro_amel_944,
Canis familiaris	ENSCAFG00000032595	14 retrocopies	retro_cfam_1060, retro_cfam_1458, retro_cfam_1871, retro_cfam_1984, retro_cfam_2210, retro_cfam_279, retro_cfam_306, retro_cfam_313, retro_cfam_407, retro_cfam_505, retro_cfam_817, retro_cfam_956, retro_cfam_967, retro_cfam_991,
Choloepus hoffmanni	ENSCHOG00000000130	3 retrocopies	retro_chof_2006, retro_chof_214, retro_chof_284,
Callithrix jacchus	ENSCJAG00000019313	18 retrocopies	retro_cjac_1034, retro_cjac_1227, retro_cjac_1398, retro_cjac_149, retro_cjac_1897, retro_cjac_223, retro_cjac_2419, retro_cjac_2431, retro_cjac_2658, retro_cjac_2795, retro_cjac_3246, retro_cjac_3314, retro_cjac_4078, retro_cjac_547, retro_cjac_763, retro_cjac_796, retro_cjac_897, retro_cjac_998,
Cavia porcellus	ENSCPOG00000025022	6 retrocopies	retro_cpor_1323, retro_cpor_145, retro_cpor_531, retro_cpor_573, retro_cpor_673, retro_cpor_843,
Dasypus novemcinctus	ENSDNOG00000019446	18 retrocopies	retro_dnov_1104, retro_dnov_1138, retro_dnov_1150, retro_dnov_1207, retro_dnov_1232, retro_dnov_1297, retro_dnov_221, retro_dnov_2273, retro_dnov_2295, retro_dnov_249, retro_dnov_269, retro_dnov_272, retro_dnov_435, retro_dnov_518, retro_dnov_520, retro_dnov_564, retro_dnov_647, retro_dnov_883,
Dipodomys ordii	ENSDORG00000005623	2 retrocopies	retro_dord_253, retro_dord_483,
Equus caballus	ENSECAG00000019989	5 retrocopies	retro_ecab_1080, retro_ecab_197, retro_ecab_376, retro_ecab_410, retro_ecab_693,
Echinops telfairi	ENSETEG00000010028	12 retrocopies	retro_etel_1019, retro_etel_131, retro_etel_1519, retro_etel_1999, retro_etel_2026, retro_etel_329, retro_etel_363, retro_etel_407, retro_etel_428, retro_etel_520, retro_etel_648, retro_etel_739,
Felis catus	ENSFCAG00000008118	8 retrocopies	retro_fcat_1006, retro_fcat_1092, retro_fcat_1248, retro_fcat_1467, retro_fcat_1893, retro_fcat_562, retro_fcat_82, retro_fcat_90,
Homo sapiens	ENSG00000143977	12 retrocopies	retro_hsap_1187, retro_hsap_1267, retro_hsap_1413, retro_hsap_1784, retro_hsap_1943, retro_hsap_1968, retro_hsap_2139, retro_hsap_2241, retro_hsap_2392, retro_hsap_296, retro_hsap_3786, retro_hsap_810,
Gorilla gorilla	ENSGGOG00000022169	3 retrocopies	retro_ggor_1413, retro_ggor_1672, retro_ggor_664,
Loxodonta africana	ENSLAFG00000002301	3 retrocopies	retro_lafr_428, retro_lafr_559, retro_lafr_887,
Microcebus murinus	ENSMICG00000015369	10 retrocopies	retro_mmur_1419, retro_mmur_1468, retro_mmur_1550, retro_mmur_265, retro_mmur_395, retro_mmur_59, retro_mmur_595, retro_mmur_625 , retro_mmur_735, retro_mmur_901,
Myotis lucifugus	ENSMLUG00000026490	3 retrocopies	retro_mluc_273, retro_mluc_46, retro_mluc_731,
Macaca mulatta	ENSMMUG00000007961	3 retrocopies	retro_mmul_1021, retro_mmul_2048, retro_mmul_300,
Monodelphis domestica	ENSMODG00000011528	1 retrocopy	retro_mdom_1945,
Mustela putorius furo	ENSMPUG00000007221	2 retrocopies	retro_mputfur_100, retro_mputfur_114,
Mus musculus	ENSMUSG00000057278	1 retrocopy	retro_mmus_186,
Nomascus leucogenys	ENSNLEG00000010182	1 retrocopy	retro_nleu_93,
Oryctolagus cuniculus	ENSOCUG00000011214	2 retrocopies	retro_ocun_1032, retro_ocun_57,
Otolemur garnettii	ENSOGAG00000015300	13 retrocopies	retro_ogar_1138, retro_ogar_1691, retro_ogar_1982, retro_ogar_2533,