RetrogeneDB ID: retro_mmur_730

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4875:6763..8338(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000016942
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SF3B2
• Ensembl ID: ENSMICG00000008565
• Aliases: None
• Description: splicing factor 3b, subunit 2, 145kDa [Source:HGNC Symbol;Acc:10769]

Sequence

>retro_mmur_730
TCATCTGAGAGCTCTGGGGACCGAGAGAAAGACTCAGCCCGGTCCCGGGGCTCTGACTCCCCAGCTGCTGATGTTGAGAT
CGAGTATGTGACCAAAGAACCTGAAATCTACGAGCCCAACTTCATCTTCTTCAACAGGATCTTTGAGGCTTTCAAGCTCA
CCGACGATGTGAAGAAGGAGAAAGAGAAGGAGCCAGAGAAACTTGACAAACTGGAGAATTCTGCAGCCCCCAAGAAGAAG
GGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAACAGGAAAAGCCAGAAGCCCCCAAGCTGTC
CAAGAAGAAGATGCGCCGGATGAATCGCTTCACTGTGGCTGAGCTCAAGCAGCTGGTGGCTCGGCCTGACGTCGTGGAGA
TGCATGATGTGACAGCACAGGACCCTAAGCTCTTGGTTCACCTCAAGGCCACTCGGAACTCCGTGCCTGTGCCACGCCAC
TGGTGTTTTAAGCGCAAGTACCTGCAGGGTAAACGGGGTATCGAGAAGCCCCCGTTCGAGCTGCCAGACTTCATCAAACG
CACAGGCATCCAGGAGATGCGGGAGGCCCTGCAGGAAAAGGAAGAACAGAAGACCATGAAGTCAAAAATGCGAGAGAAGG
TTCGGCCCAAGATGGGCAAGATTGACATTGACTACCAGAAACTGCATGATGCCTTCTTCAAGTGGCAGACCAAACCAAAG
CTGACCATCCATGGGGACCTATACTATGAGGGGAAGGAGTTTGAGACACGACTGAAGAAGAAGCCAAGAGATTTGTCCGA
CGAGCTAAGGATTTCCTTGGGGATGCCAGTAGGACCAAATGCCCACAAGGTCCCTCCTCCGTGGCTGATTGCCATGCAGA
GATATGGGCCACCCCCGTCCTACCCCAACCTGAAAATCCCCGGCCTGCACTCGCCCATCCCTGAGAGCTGTTCCTTTGGG
TACCATGCTGGTGGCTGGGGCAAACCCCCAGTAGATGAGACTGGGAAACCACTCTATGGGGACGTGTTTGGAACCAATGC
TGCTGAATTTCAGACCAAGACTGAGGAAGAAGAGATTGATCGGACCCCTTGGGGGGAACTGGAGCCATCTGATGAAGAAT
CTTCAGAAGAAGAGGAAGAAGAGGATAGCGATGAAGACAAACCAGATGAGACAGGCTTTATTACCCCTGCAGACAGTGGC
CTCATCACTCCTGGAGGGTTCTCATCAGTCCCAGCTGGAATGGAGACCCCTGAACTCATCATTGAGCTGAGAAAGAAGAA
GATTGAGGAGGCAATGGATGGAAGTGAGACTCCTCAGCTGTTCACTGTATTGCCAGAGAAGAGAACAGCCACCGTTGGGG
GAGCTATGATGGGATCAACCCACATTTATGACATGTCCACAGTTATGAGCCGGAAGGGCCCGGCCCCCCAGCTGCAAGGT
GTGGAAGTGGCCCTGGCACCTGAAGAGTTGGAGTTGGATCCCATGGCCATGACCCAGAAGTATGAGGAGCACGTGCGGGA
GCAGCAGGCACAAGTGGAGAAGGAAGACTTCAGTGACATGGTGGCGGAGCATGCT

Alignment

ORF - retro_mmur_730 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.7 %
• Parental protein coverage: 58.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SSESSGDREKDSARSRGSDSPAADVEIEYVTEEPEIYEPNFIFFKRIFEAFKLTDDVKKEKEKEPEKLDK
          SSESSGDREKDSARSRGSDSPAADVEIEYVT.EPEIYEPNFIFF.RIFEAFKLTDDVKKEKEKEPEKLDK
Retrocopy SSESSGDREKDSARSRGSDSPAADVEIEYVTKEPEIYEPNFIFFNRIFEAFKLTDDVKKEKEKEPEKLDK

Parental  LENSAAPKKKGFEEEHKDSDDDSSDDEQEKKPEAPKLSKKKMRRMNRFTVAELKQLVARPDVVEMHDVTA
          LENSAAPKKKGFEEEHKDSDDDSSDDEQE.KPEAPKLSKKKMRRMNRFTVAELKQLVARPDVVEMHDVTA
Retrocopy LENSAAPKKKGFEEEHKDSDDDSSDDEQE-KPEAPKLSKKKMRRMNRFTVAELKQLVARPDVVEMHDVTA

Parental  QDPKLLVHLKATRNSVPVPRHWCFKRKYLQGKRGIEKPPFELPDFIKRTGIQEMREALQEKEEQKTMKSK
          QDPKLLVHLKATRNSVPVPRHWCFKRKYLQGKRGIEKPPFELPDFIKRTGIQEMREALQEKEEQKTMKSK
Retrocopy QDPKLLVHLKATRNSVPVPRHWCFKRKYLQGKRGIEKPPFELPDFIKRTGIQEMREALQEKEEQKTMKSK

Parental  MREKVRPKMGKIDIDYQKLHDAFFKWQTKPKLTIHGDLYYEGKEFETRLKEKKPGDLSDELRISLGMPVG
          MREKVRPKMGKIDIDYQKLHDAFFKWQTKPKLTIHGDLYYEGKEFETRLK.KKP.DLSDELRISLGMPVG
Retrocopy MREKVRPKMGKIDIDYQKLHDAFFKWQTKPKLTIHGDLYYEGKEFETRLK-KKPRDLSDELRISLGMPVG

Parental  PXXXXXXXSPWLI-MQRY--PPSYPTLKIPGLNSPIPESCSFGYHA-GWGKPPVDETGKPLYGDVFGTNA
          P........PWLI.MQRY..PPSYP.LKIPGL.SPIPESCSFGYHA.GWGKPPVDETGKPLYGDVFGTNA
Retrocopy P-NAHKVPPPWLIAMQRYGPPPSYPNLKIPGLHSPIPESCSFGYHAGGWGKPPVDETGKPLYGDVFGTNA

Parental  AEFQTKTEEEEIDRTPWGELEPSDEESSEEEEEEESDEDKPDETGFITPADSGLITPGGFSSVPAGMETP
          AEFQTKTEEEEIDRTPWGELEPSDEESS.......SDEDKPDETGFITPADSGLITPGGFSSVPAGMETP
Retrocopy AEFQTKTEEEEIDRTPWGELEPSDEESSXXXXXXXSDEDKPDETGFITPADSGLITPGGFSSVPAGMETP

Parental  EL-IELRKKKIEEAMDGSETPQLFTVLPEKRTATVGGAMMGSTHIYDMSTVMSRKGPAPELQGVEVALAP
          EL.IELRKKKIEEAMDGSETPQLFTVLPEKRTATVGGAMMGSTHIYDMSTVMSRKGPAP.LQGVEVALAP
Retrocopy ELIIELRKKKIEEAMDGSETPQLFTVLPEKRTATVGGAMMGSTHIYDMSTVMSRKGPAPQLQGVEVALAP

Parental  EELELDPMAMTQKYEEHVREQQAQVEKEDFSDMVAEHA
          EELELDPMAMTQKYEEHVREQQAQVEKEDFSDMVAEHA
Retrocopy EELELDPMAMTQKYEEHVREQQAQVEKEDFSDMVAEHA

Legend:

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

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_730 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_730 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000008565	1 retrocopy	retro_mmur_730 ,
Monodelphis domestica	ENSMODG00000008490	1 retrocopy	retro_mdom_169,