RetrogeneDB ID: retro_mluc_1250

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429809:5177622..5178554(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000022298
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: EEF1A2
• Ensembl ID: ENSMLUG00000016760
• Aliases: None
• Description: None

Sequence

>retro_mluc_1250
ATGGGAAAGGAAATGACTCATATCAACATCATCCTCATTGGACACGTAGATTCCGGAAGTCTACCACTACTGGCCATTTG
ATTTAGAAAGTGGTGAGATCAACAAAAGAACCATGGGAAAATTTGAGGAGGCAGCAGAGATGGGAAGGACTCCTTCAAGT
ATGCCTGGATCTTGGATAAACTGAAAGCCAAATGTGAGAGTGGTACCTCCATTGATAAATTCCTGTGGAAATTCGAGACC
AGAAAGTATTATTGACCATTATCGATGCCCCAGGACACAGAGACTTCATCAAAAACATGGTTACTTAAAAGCACATCTCA
GGCTAACTGTGCTGTCGTGATTGTTGCTGCTGCTGGTGGTGAACTTGAAGCAGGCATCTCCAAGAATGAGCAGACCTGTG
AGCATGCCTTTTTGGCTTACACACTGGGTGTGAAACAACTGATTGTTGGTGTTAACACAATGGATTCCACTGAGCTGCCC
TACAGCCAGAAGAGATACAAGGAGAGTGTTAAAGAAGTCAGCACCTACATTAAGAAAATTAGCCACAACTCTAACACAGC
AGCATTTGTGCCAATTTCTGGATGGAATGGCAACAACAGGCTGGAACCAAGTGCTAACATGCTTTGGCTCAAGGGGTGGA
AAGTCCCCCCTAAAGATGGCAATGCCAATGGAACCAGGCTGCTTGGAGCTCTGGATTGCATCCTGCCACCAACTCGTCCA
AATTATAAGCCCCTGTGTCTGCCCCTCCAGGATGTCTACAAAATTGGAGGCATTGGTACTGTCCGTGTGGGCCGAGTGGA
GACTAGTGTTCTCAGACCCTGCGTGGTGGTCACCTTGGCTCCAGTCAGTGTTATAACTGAAGTGAAGTCTGTTGAAATGC
ACCATAAAACTTTCAGTGAGGCTGCTCTGAGGAAAACGTGGGCTTCAGTGTC

Alignment

ORF - retro_mluc_1250 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.41 %
• Parental protein coverage: 90.72 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  MGKEKTHINIVVIGHVDSG-KSTTTGHLIYKC-GGIDKRTIEKFEKEAAEMG-KGSFKYAWVLDKLKAER
          MGKE.THINI..IGHVDSG.KSTTTGHLI.K..G.I.KRT..KFE.EAAEMG.K.SFKYAW.LDKLKA..
Retrocopy MGKEMTHINIILIGHVDSG<KSTTTGHLI*KV<GEINKRTMGKFE-EAAEMG<KDSFKYAWILDKLKAKC

Parental  ERGITIDISLWKFETTKYY-ITIIDAPGHRDFIKNMITGTSQAGGLRC-VIVAAGVGEFEAGISKNGQTR
          E.G..ID..LWKFET.KYY..TIIDAPGHRDFIKNM.T.....G.L.C.VIVAA..GE.EAGISKN.QT.
Retrocopy ESGTSIDKFLWKFETRKYY<LTIIDAPGHRDFIKNMVT*KHISG*LCC>VIVAAAGGELEAGISKNEQTC

Parental  EHALLAYTLGVKQLIVGVNKMDSTEPAYSEKRYDEIVKEVSAYIKKIGYNPATVPFVPISGWHGDNMLEP
          EHA.LAYTLGVKQLIVGVN.MDSTE..YS.KRY.E.VKEVS.YIKKI..N..T..FVPISGW.G.N.LEP
Retrocopy EHAFLAYTLGVKQLIVGVNTMDSTELPYSQKRYKESVKEVSTYIKKISHNSNTAAFVPISGWNGNNRLEP

Parental  SPNMPWFKGWKVERKEGNASGVSLLEALDTILPPTRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGILRP
          S.NM.W.KGWKV..K.GNA.G..LL.ALD.ILPPTRP..KPL.LPLQDVYKIGGIGTV.VGRVET..LRP
Retrocopy SANMLWLKGWKVPPKDGNANGTRLLGALDCILPPTRPNYKPLCLPLQDVYKIGGIGTVRVGRVETSVLRP

Parental  GMVVTFAPVNITTEVKSVEMHHEALSEA-LPGDNVGFNV
          ..VVT.APV...TEVKSVEMHH...SEA.....NVGF.V
Retrocopy CVVVTLAPVSVITEVKSVEMHHKTFSEA<CSEENVGFSV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_1250 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 14 parental genes, and 69 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000013249	1 retrocopy	retro_cfam_1007,
Equus caballus	ENSECAG00000022260	1 retrocopy	retro_ecab_802,
Latimeria chalumnae	ENSLACG00000002952	1 retrocopy	retro_lcha_39,
Loxodonta africana	ENSLAFG00000028081	1 retrocopy	retro_lafr_651,
Macropus eugenii	ENSMEUG00000005018	23 retrocopies	retro_meug_1067, retro_meug_110, retro_meug_1160, retro_meug_1240, retro_meug_1334, retro_meug_135, retro_meug_1421, retro_meug_1451, retro_meug_1465, retro_meug_1501, retro_meug_1662, retro_meug_1690, retro_meug_1710, retro_meug_1829, retro_meug_2023, retro_meug_2044, retro_meug_2050, retro_meug_316, retro_meug_601, retro_meug_755, retro_meug_792, retro_meug_850, retro_meug_920,
Myotis lucifugus	ENSMLUG00000013537	24 retrocopies	retro_mluc_110, retro_mluc_1252, retro_mluc_1392, retro_mluc_1430, retro_mluc_1558, retro_mluc_1628, retro_mluc_1644, retro_mluc_1853, retro_mluc_1901, retro_mluc_1910, retro_mluc_2071, retro_mluc_2148, retro_mluc_2154, retro_mluc_2277, retro_mluc_2355, retro_mluc_2358, retro_mluc_2359, retro_mluc_2391, retro_mluc_441, retro_mluc_470, retro_mluc_677, retro_mluc_950, retro_mluc_956, retro_mluc_966,
Myotis lucifugus	ENSMLUG00000016760	1 retrocopy	retro_mluc_1250 ,
Mustela putorius furo	ENSMPUG00000008289	3 retrocopies	retro_mputfur_1030, retro_mputfur_609, retro_mputfur_761,
Nomascus leucogenys	ENSNLEG00000010060	2 retrocopies	retro_nleu_11, retro_nleu_1489,
Ornithorhynchus anatinus	ENSOANG00000004908	1 retrocopy	retro_oana_73,
Otolemur garnettii	ENSOGAG00000004630	8 retrocopies	retro_ogar_1067, retro_ogar_2034, retro_ogar_2329, retro_ogar_2497, retro_ogar_2583, retro_ogar_3191, retro_ogar_3270, retro_ogar_643,
Ictidomys tridecemlineatus	ENSSTOG00000028862	1 retrocopy	retro_itri_1028,
Tursiops truncatus	ENSTTRG00000001835	1 retrocopy	retro_ttru_993,
Drosophila melanogaster	FBgn0000557	1 retrocopy	retro_dmel_9,