RetrogeneDB ID: retro_mluc_427

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: AAPE02063219:11545..12651(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACTA2
• Ensembl ID: ENSMLUG00000015509
• Aliases: None
• Description: None

Sequence

>retro_mluc_427
GATGATGATATTGCTGTGCTCATGGTGGGCAAGGGCTCCGGCATGTGCAAAGCAAGCTTCGCGGGGGATGATGCCCCCAG
AGTGGTCTTCCCCTCCATCGTGGGGCACCCCTGGCACCAGGGCGTGATGGTGGGTATGGGCCAGAAGGACTCCTACGTGG
GTGATGAGGCCCAGAACAAGAGAGGCATCCTGACCCTGAAGTACCCCATCCAGCACGGCATCGTCACCAACTGGGACAAA
TGGAGATCTGGCATCACACTTTCTACAACGAGCTGCGTGTGGTTCCCGAGGAGCACCCTGTCCTGCTCACCGAGGCCCCT
CTGAACCCTAAGGCTAAACGTGAGAAGATGACCCAGATCATGTTCCAGACCTTCAACACCCCGCCATGTACGTGGCCATC
CAGGCCGAGCTGTCCCTGTAGCCTCTGGCTGCACCACGGGCATCTGATGGACTCTGGGGACGGGGTCACCCACACGGTGC
CCATCTACGAGGTCTATGCCCTCCCCCACACCATCCTGCGTCTGGACCTGACTGGCCGGGACCTGACAGACTACCTCATG
AAGATCCTCACGGAGCGTGGCTACAGCTTCACCACCACAGCAGAGCGGGAAATCGTGGGCAACATCAAGGAGAAACGGTG
TTACGTCGCCCTGGACTTCGAGCAGGCGATGGCCACCGCAGCCTCCAGCTCCTCCCTGGAGAAGAGCCACGAGCTGCCCG
ATGGGCAGGTGATCACCATCGGAAATGAGCGCTTCCGCTGCCCCAAGGCCCTCTTCCAGCCCTCCTTCCTGGGCATGGAA
TCCTGTGGCATCCATGAAACTACCTTTACCTCCATCATGAAGTGTGACGTCAACATCCGTAAGGACCTGTAAACCAACAC
GGTGCTGTCCACCACCATGTACCCAGGCATCCCTGACAGGATGCAGGAGATCACCGCTCTGGCTCCCAGCAAGATGAAGA
TCAAGATCATTGCACCCCCTGAGCGCAAGTACTCTGTGTGGATTGGCGGCTCCATCCTGGCCTCGCTGTCCAACTTCCAG
CAGATGTGGATCAGCAAGCAGGAGTAGGACGAGTCCGGCCCCGCCGTCGTCCACCGCAAATGCTTC

Alignment

ORF - retro_mluc_427 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.01 %
• Parental protein coverage: 99.2 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  EEDSTALVCDNGSGLCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKYPI
          ..D...L....GSG.CKA.FAGDDAPR.VFPSIVG.P.HQGVMVGMGQKDSYVGDEAQ.KRGILTLKYPI
Retrocopy DDDIAVLMVGKGSGMCKASFAGDDAPRVVFPSIVGHPWHQGVMVGMGQKDSYVGDEAQNKRGILTLKYPI

Parental  EHGIITNWD-DMEKIWHHSFYNELRVAPEEHPTLLTEAPLNPKANREKMTQIMFETFNVP-AMYVAIQAV
          .HGI.TNWD..ME.IWHH.FYNELRV.PEEHP.LLTEAPLNPKA.REKMTQIMF.TFN.P.AMYVAIQA.
Retrocopy QHGIVTNWD<QME-IWHHTFYNELRVVPEEHPVLLTEAPLNPKAKREKMTQIMFQTFNTP<AMYVAIQAE

Parental  LSL-YASGRTTGI-VLDSGDGVTHNVPIYEGYALPHAIMRLDLAGRDLTDYLMKILTERGYSFVTTAERE
          LSL..ASG.TTGI...DSGDGVTH.VPIYE.YALPH.I.RLDL.GRDLTDYLMKILTERGYSF.TTAERE
Retrocopy LSL<VASGCTTGI<LMDSGDGVTHTVPIYEVYALPHTILRLDLTGRDLTDYLMKILTERGYSFTTTAERE

Parental  IVRDIKEKLCYVALDFENEMATAATSSSLEKSYELPDGQVITIGNERFRCPETLFQPSFIGMESAGIHET
          IV..IKEK.CYVALDFE..MATAA.SSSLEKS.ELPDGQVITIGNERFRCP..LFQPSF.GMES.GIHET
Retrocopy IVGNIKEKRCYVALDFEQAMATAASSSSLEKSHELPDGQVITIGNERFRCPKALFQPSFLGMESCGIHET

Parental  TYNSIMKCDIDIRKDLYANNVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILA
          T..SIMKCD..IRKDL..N.VLS..TTMYPGI.DRMQ.EITALAPS.MKIKIIAPPERKYSVWIGGSILA
Retrocopy TFTSIMKCDVNIRKDL*TNTVLS--TTMYPGIPDRMQ-EITALAPSKMKIKIIAPPERKYSVWIGGSILA

Parental  SLSTFQQMWISKQEYDEAGPSIVHRKCF
          SLS.FQQMWISKQE.DE.GP..VHRKCF
Retrocopy SLSNFQQMWISKQE*DESGPAVVHRKCF

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_427 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 12 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000759	3 retrocopies	retro_chof_1909, retro_chof_2042, retro_chof_21,
Dasypus novemcinctus	ENSDNOG00000006719	1 retrocopy	retro_dnov_32,
Echinops telfairi	ENSETEG00000008526	1 retrocopy	retro_etel_41,
Macropus eugenii	ENSMEUG00000010843	1 retrocopy	retro_meug_1374,
Myotis lucifugus	ENSMLUG00000015509	3 retrocopies	retro_mluc_190, retro_mluc_427 , retro_mluc_90,
Nomascus leucogenys	ENSNLEG00000012233	1 retrocopy	retro_nleu_2313,
Oryctolagus cuniculus	ENSOCUG00000008193	3 retrocopies	retro_ocun_1306, retro_ocun_1421, retro_ocun_919,
Pongo abelii	ENSPPYG00000002459	1 retrocopy	retro_pabe_3027,
Sorex araneus	ENSSARG00000005778	1 retrocopy	retro_sara_732,
Tupaia belangeri	ENSTBEG00000017616	3 retrocopies	retro_tbel_1555, retro_tbel_3014, retro_tbel_4616,
Tarsius syrichta	ENSTSYG00000008155	5 retrocopies	retro_tsyr_1282, retro_tsyr_2102, retro_tsyr_858, retro_tsyr_9, retro_tsyr_92,
Vicugna pacos	ENSVPAG00000010621	3 retrocopies	retro_vpac_12, retro_vpac_355, retro_vpac_651,