RetrogeneDB ID: retro_mluc_1310

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429817:1430668..1431772(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1GALT1
• Ensembl ID: ENSMLUG00000014789
• Aliases: None
• Description: None

Sequence

>retro_mluc_1310
ATCGCCTCTAAATCTTGGCTGAATTTTTTAATCTTCCTCTGTAGATCAGCAGTTGGATTTGTTTTATGTTCTCAGCTATT
TAGTATTTTGTTGGGAGAACAGGGTGACACCCAACCCAAGATTCTTCATAATGATCCTCATGCTAGGCATTCAGATGATA
ATGGACAGAATCATCTAGAAGGACAGATGAACTTCAATGCAGGTGCTAGCCAACATAAAGATGAGAACACTGACATCGCT
GAAAACCTCTATCAGAAGGTTAAAATTCTTTGCTGGGTTATGACAGGACCTCAAAATCTAGAGAAAAAGGCTAAACATGT
CAAAGCTACATGGGCCCAGCGCTGTAATAAAGTGTTGTTTATGAGTTCAGAAGAAGACAAAGACTTCCCTGCTGTGGGAT
TAGAAACCAGAGAAGGCAGAGACCAGCTATGCTGGAAAACAATTAAAGCTTTTCAGTATGTTCATGATCACTATTTAGAA
GATGCTGATTGGTTTATGAAAGCTGATGACGATACATATGTTATACTAGACAATTTGAGATGGCTTCTCTCAAAACACAG
CCCTGAAGAACCCATTTACTTTGGGAGAAGATTTAAGCCCTATGTTAAGTAGGGCCACATGAGTGAAGGAGCAGGATATG
TACCGAGCAAAGAAACCTTGAAGAGATTTGTTGATGCGTTTAAAACAAAGAAATGTACACATAGTTCCTCCATTGAAGAT
TTAGCACTGGGAAGATGCATGGAAATTATAAATGTAGAAGCGGGAGATTCCAGAGATACCATTGGAAAAGAAACTTTTCA
TCCCTTTGTACCAGAGCACCACTTAATCAAGGGTTATCTACCTAAAACATTTTGGTACTGGAATTATAACTATTACCCTC
CTGTAGAGGGTCCTGGTTGCTGTTCTGATCTTGCAGTTTCTTTTCACTATGTTGATCCTACAACCATGTATGAGTTAGGA
TACCTCGTTTATCATCTTCGTCCATATGGATATTTATACAGATATCAACCTGCCTTACCTGAAAATATAGGGAAGGAAAT
AAGTCAAGCATACAAAAATGAAGATCCAAAGTAAAATTTGGAAACCTTGAAAGAAAAGCATAAA

Alignment

ORF - retro_mluc_1310 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.02 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASKSWLNFLIFLCGSAVGFVLCSQLFSILLGEQGDTQPKILHNDPHARHSDDNGQNHLEGQMNFNADVS
          .ASKSWLNFLIFLC.SAVGFVLCSQLFSILLGEQGDTQPKILHNDPHARHSDDNGQNHLEGQMNFNA..S
Retrocopy IASKSWLNFLIFLCRSAVGFVLCSQLFSILLGEQGDTQPKILHNDPHARHSDDNGQNHLEGQMNFNAGAS

Parental  QHKDENTDIAENLYQKVKILCWVMTGPQNLEKKAKHVKATWAQRCNKVLFMSSEENKDFPAVGLETREGR
          QHKDENTDIAENLYQKVKILCWVMTGPQNLEKKAKHVKATWAQRCNKVLFMSSEE.KDFPAVGLETREGR
Retrocopy QHKDENTDIAENLYQKVKILCWVMTGPQNLEKKAKHVKATWAQRCNKVLFMSSEEDKDFPAVGLETREGR

Parental  DQLYWKTIKAFQYVHDHYLEDADWFMKADDDTYVILDNLRWLLSKHSPEEPIYFGRRFKPYVKQGYMSGG
          DQL.WKTIKAFQYVHDHYLEDADWFMKADDDTYVILDNLRWLLSKHSPEEPIYFGRRFKPYVK.G.MS.G
Retrocopy DQLCWKTIKAFQYVHDHYLEDADWFMKADDDTYVILDNLRWLLSKHSPEEPIYFGRRFKPYVK*GHMSEG

Parental  AGYVLSKEALKRFVDAFKTEKCTHSSSIEDLALGRCMEIINVEAGDSRDTIGKETFHPFVPEHHLIKGYL
          AGYV.SKE.LKRFVDAFKT.KCTHSSSIEDLALGRCMEIINVEAGDSRDTIGKETFHPFVPEHHLIKGYL
Retrocopy AGYVPSKETLKRFVDAFKTKKCTHSSSIEDLALGRCMEIINVEAGDSRDTIGKETFHPFVPEHHLIKGYL

Parental  PKTFWYWNYNYYPPVEGPGCCSDLAVSFHYVDPTTMYELEYLVYHLRPYGYLYRYQPALPENIRKEISQA
          PKTFWYWNYNYYPPVEGPGCCSDLAVSFHYVDPTTMYEL.YLVYHLRPYGYLYRYQPALPENI.KEISQA
Retrocopy PKTFWYWNYNYYPPVEGPGCCSDLAVSFHYVDPTTMYELGYLVYHLRPYGYLYRYQPALPENIGKEISQA

Parental  YKNEDPKKKFSLLKKKKR
          YKNEDPK.....LK.K..
Retrocopy YKNEDPK*NLETLKEKHK

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_1310 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 10 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000225	2 retrocopies	retro_chof_1782, retro_chof_2581,
Dasypus novemcinctus	ENSDNOG00000017353	2 retrocopies	retro_dnov_1801, retro_dnov_1905,
Homo sapiens	ENSG00000106392	2 retrocopies	retro_hsap_3177, retro_hsap_4065,
Loxodonta africana	ENSLAFG00000000063	1 retrocopy	retro_lafr_1166,
Myotis lucifugus	ENSMLUG00000014789	1 retrocopy	retro_mluc_1310 ,
Macaca mulatta	ENSMMUG00000016338	1 retrocopy	retro_mmul_2009,
Oryctolagus cuniculus	ENSOCUG00000026002	1 retrocopy	retro_ocun_216,
Otolemur garnettii	ENSOGAG00000012847	1 retrocopy	retro_ogar_855,
Petromyzon marinus	ENSPMAG00000001562	1 retrocopy	retro_pmar_2,
Pan troglodytes	ENSPTRG00000018925	2 retrocopies	retro_ptro_2266, retro_ptro_2755,