RetrogeneDB ID: retro_mluc_2134

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430055:1173861..1174833(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000023825
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CSNK1A1
• Ensembl ID: ENSMLUG00000002910
• Aliases: None
• Description: None

Sequence

>retro_mluc_2134
ATGGCGAGCTGCAGCAGCTCTCAGGCCGAATTCACTGTCCGGGGGAAATACAAGCTGGTGCGCAAGATCGGGTCTGGCTC
CTTCGGGGACATCTACCTGGCGATCAACATCACCAACGGCGAGGAGGTGGCGGTGAAGCTCGAGTCCCTGAAGGCCCGGC
ACCCGCAGCTGCTGTACGAGAGCAAGCTCTACAAGATCCTGCAGGGCGGGGTGGGCATCCCGCACATCCGGTGGTACGGG
CAGGAGAAAGACCACAACGTGCTGGTCATGGACCTCCTGGGGCCCAGCCTGGAAGACCTCTTCAACTTCTGCTCCAGGAG
CTTCACCATGAAGACTATACTGATGCTCGCGGACCAGATGATCAGCAGGGTGGAATATGTGCATACAAAGAATTTCATAC
ACCGAGACATCAAACCGGACAACTTCCTCATGGGCATCGGGCGCCACTGTAATAAGTTGTTCCTGATTGATTTCGGTTTG
GCCAAAAAATACAGAGACAACAGGACAAGGCAACACATCCCGTACCGAGAAGATAAAAACCTCACGGGCACGGCCCGGTA
TGCGAGCATCAATGCCCACCTTGGCGTGGAACAGAGTCGCCGGGACGACATGGAATCGTTAGGCTATGTTTTGATGTATT
TTAACAGAACCAGCCTGCCGTGGCAAGGGCTGAAGGCTGCCACCAAGGTACAGAAATACGAGAAGATTAGTGAAAAGAAG
ATGTCCATTCCTGTTGAAGTCTTATGTAAGGGGTTTCCTTCGGAATTTGCCATGTACTTAAACTACTGCCGTGGGCTGCG
CTTTGAAGAAGCCCCGAATTACATGTACCTGAGGCAGCTCTTCCGCATTCTTTTCAGGACCCTGAACCACCAGTATGACT
ACACATTTGACTGGACAACGCTGAAGCAGAAAGCAGCCCAGTCGGCGGCCTCTTCCAGTGGGCAGGGTCAGCAGGCCCCA
ACCGCCACAGGT

Alignment

ORF - retro_mluc_2134 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.52 %
• Parental protein coverage: 96.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASSSGSKAEFIVGGKYKLVRKIG-GSFGDIYLAINITNGREVAVKLESQKARHPQLLYESKLYKILQGG
          MAS.S.S.AEF.V.GKYKLVRKIG.GSFGDIYLAINITNG.EVAVKLES.KARHPQLLYESKLYKILQGG
Retrocopy MASCSSSQAEFTVRGKYKLVRKIGSGSFGDIYLAINITNGEEVAVKLESLKARHPQLLYESKLYKILQGG

Parental  VGIPHIRWYGQEKDYNVLVMDLLGPSLEDLFNFCSRRFTMKTVLMLADQMISRIEYVHTKNFIHRDIKPD
          VGIPHIRWYGQEKD.NVLVMDLLGPSLEDLFNFCSR.FTMKT.LMLADQMISR.EYVHTKNFIHRDIKPD
Retrocopy VGIPHIRWYGQEKDHNVLVMDLLGPSLEDLFNFCSRSFTMKTILMLADQMISRVEYVHTKNFIHRDIKPD

Parental  NFLMGIGRHCNKLFLIDFGLAKKYRDNRTRQHIPYREDKNLTGTARYASINAHLGIEQSRRDDMESLGYV
          NFLMGIGRHCNKLFLIDFGLAKKYRDNRTRQHIPYREDKNLTGTARYASINAHLG.EQSRRDDMESLGYV
Retrocopy NFLMGIGRHCNKLFLIDFGLAKKYRDNRTRQHIPYREDKNLTGTARYASINAHLGVEQSRRDDMESLGYV

Parental  LMYFNRTSLPWQGLKAATKKQKYEKISEKKMSTPVEVLCKGFPAEFAMYLNYCRGLRFEEAPDYMYLRQL
          LMYFNRTSLPWQGLKAATK.QKYEKISEKKMS.PVEVLCKGFP.EFAMYLNYCRGLRFEEAP.YMYLRQL
Retrocopy LMYFNRTSLPWQGLKAATKVQKYEKISEKKMSIPVEVLCKGFPSEFAMYLNYCRGLRFEEAPNYMYLRQL

Parental  FRILFRTLNHQYDYTFDWTMLKQKAAQQAASSSGQGQQAQTPTG
          FRILFRTLNHQYDYTFDWT.LKQKAAQ.AASSSGQGQQA.T.TG
Retrocopy FRILFRTLNHQYDYTFDWTTLKQKAAQSAASSSGQGQQAPTATG

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_2134 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 30 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005326	2 retrocopies	retro_btau_1662, retro_btau_49,
Canis familiaris	ENSCAFG00000018286	1 retrocopy	retro_cfam_1887,
Callithrix jacchus	ENSCJAG00000021121	1 retrocopy	retro_cjac_2680,
Homo sapiens	ENSG00000113712	1 retrocopy	retro_hsap_32,
Gorilla gorilla	ENSGGOG00000013926	3 retrocopies	retro_ggor_1178, retro_ggor_742, retro_ggor_984,
Myotis lucifugus	ENSMLUG00000002910	4 retrocopies	retro_mluc_1531, retro_mluc_2134 , retro_mluc_2215, retro_mluc_597,
Macaca mulatta	ENSMMUG00000001758	2 retrocopies	retro_mmul_2207, retro_mmul_295,
Monodelphis domestica	ENSMODG00000009937	1 retrocopy	retro_mdom_2005,
Oryctolagus cuniculus	ENSOCUG00000006669	7 retrocopies	retro_ocun_1068, retro_ocun_1098, retro_ocun_1506, retro_ocun_500, retro_ocun_502, retro_ocun_506, retro_ocun_644,
Sorex araneus	ENSSARG00000011446	1 retrocopy	retro_sara_518,
Sarcophilus harrisii	ENSSHAG00000015356	1 retrocopy	retro_shar_834,
Sus scrofa	ENSSSCG00000014435	1 retrocopy	retro_sscr_560,
Ictidomys tridecemlineatus	ENSSTOG00000022141	1 retrocopy	retro_itri_1378,
Drosophila melanogaster	FBgn0015024	4 retrocopies	retro_dmel_10, retro_dmel_32, retro_dmel_40, retro_dmel_67,