RetrogeneDB ID: retro_mluc_1517

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429853:331976..332502(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000024154
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SNRPA
• Ensembl ID: ENSMLUG00000000219
• Aliases: None
• Description: small nuclear ribonucleoprotein polypeptide A [Source:HGNC Symbol;Acc:11151]

Sequence

>retro_mluc_1517
TTCTACGACAAGCCCATGCGTATCCAGTACACCAAGACCAACTCGCATATCACTGCCAAGATGAAGGGCACTTTCGTGGA
GCATGACCGTAAGCGGGAGAAGAGGAAGCCCAGGAGCCAGGAGACCCCAGCTGCAAAGAAGGCCGTGCAGGGCGGGGCAG
CCACCCCTGTGGTGGGGGCCGTCCTGGGGCCTGTCCCGGGCCTGCCGCCGATGACTCAGGCGCCCCGCATCATGCACCAC
AGGCCAGGCCAGCCTCCCTACATGCCACCCCCTGGCATGATCCCACCTCCAGGCCTCGCCCCTGGCCAGATACCACCGGG
AGCCATGCCCCCACAGCAGCTTATGCCAGGGCAGGTGCCACCTGCTCAGCCTCTTTCAGAAAACCCACCAAATCACATCT
TGTTCCTCACCACCTGCCAGAGAGACCGATGAGCTCGTGCTGTCCATGCTTTTCAATCAGTTCCCCGGCTTCAAGGAGGT
TCGGCCGGTCCCAGGGCGGCACGACATCGCCTTTGTGGAGTTTGAC

Alignment

ORF - retro_mluc_1517 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.45 %
• Parental protein coverage: 61.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  FYDKPMRIQYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPAAKKAVQGGAAAPVVGAVPGPVPGMPP
          FYDKPMRIQY.KT.S.I.AKMKGTFVE.DRKREKRKP.SQETPAAKKAVQGGAA.PVVGAV.GPVPG.PP
Retrocopy FYDKPMRIQYTKTNSHITAKMKGTFVEHDRKREKRKPRSQETPAAKKAVQGGAATPVVGAVLGPVPGLPP

Parental  MTQAPRIMHHMPGQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLT-NL
          MTQAPRIMHH.PGQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQ.PPAQPLSENPPNHILFLT..L
Retrocopy MTQAPRIMHHRPGQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQVPPAQPLSENPPNHILFLT<HL

Parental  PE-ETNELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFD
          PE.ET.EL.LSMLFNQFPGFKEVR.VPGRHDIAFVEFD
Retrocopy PE<ETDELVLSMLFNQFPGFKEVRPVPGRHDIAFVEFD

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_1517 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 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005091	1 retrocopy	retro_cfam_1114,
Callithrix jacchus	ENSCJAG00000014865	1 retrocopy	retro_cjac_287,
Cavia porcellus	ENSCPOG00000010875	1 retrocopy	retro_cpor_663,
Myotis lucifugus	ENSMLUG00000000219	1 retrocopy	retro_mluc_1517 ,
Myotis lucifugus	ENSMLUG00000008163	5 retrocopies	retro_mluc_1450, retro_mluc_1451, retro_mluc_1452, retro_mluc_2268, retro_mluc_586,
Monodelphis domestica	ENSMODG00000007912	1 retrocopy	retro_mdom_447,
Mustela putorius furo	ENSMPUG00000017681	1 retrocopy	retro_mputfur_593,
Mus musculus	ENSMUSG00000061479	6 retrocopies	retro_mmus_275, retro_mmus_3374, retro_mmus_469, retro_mmus_888, retro_mmus_889, retro_mmus_958,
Otolemur garnettii	ENSOGAG00000002864	1 retrocopy	retro_ogar_2046,
Pteropus vampyrus	ENSPVAG00000001494	1 retrocopy	retro_pvam_832,