RetrogeneDB ID: retro_mmur_401

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_284:609693..610825(+)
• Located in intron of: ENSMICG00000012784

Retrocopy information

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

Parental gene information

• Parental gene symbol: SGK1
• Ensembl ID: ENSMICG00000007886
• Aliases: None
• Description: serum/glucocorticoid regulated kinase 1 [Source:HGNC Symbol;Acc:10810]

Sequence

>retro_mmur_401
ATTCAGTCAATCTTGAAATCTCCCAGCCTCAGGAGCCTGAGCTTATGAATGCCAACCCTTCTCCCCCACCAAGTCCTTCT
CAGCAAATCAACCTTGGCCCGTCATCCAACCCTCGTGCTAAACCATCTGACTTTCACTTCTTGAAAGTGATTGGGAAAGG
CAGTTTTGGAAAGGTTCTTCTAGCAAGACACAAGGCAGAAGAAGTGTTCTATGCAGTCAAAGTTTTACAGAAGAAAGCAA
TCCTGAAAAAGGAGGAGGAGAAGCATATTATGTCATAGCGGAATGTTTTATTGAAGAATGTGAAACGCCCTTTCCTGGTG
GGCCTTCACTTCTCTTTCCAGACTGCTGACAAATTGTACTTTGTCCTAGACTACATTAACGGTGGAGAGTTGTTCTACCA
TCTCCAGAGAGAACGCTGCTTTCTGGAACCACGGGCTCGTTTCTATGCTGCTGAAATAGCAGTGCCTTGGGTTACCTGCA
CTCTCTGAACATCGTGTATAGAGGCTTAAAACCTGAGAATATTTTGCTAGATTCCCAGGGACACACTGTCCTTACTGACT
TTGGACTCTGCAAGGAAAACATTGAGCACAATGGCACGACATCTACCTTCTGTGGCACACCTGAGTATCTCGCACCTGAG
GTGCTGCATAAGCAGCCCTACGACAGGACTGTGGACTGGTGGTGCCTCGGGGCTGTCTTGTATGAGATGCTCTATGGCCT
GCCTCCTTTTTATAGCCGAAACACAGCTGAGATGTACGACAACATTCTGAACAAGCCCCTCCAGTTGAAACCAAATATCA
CAAATTCCGCAGGACACCTCCTGGAGGGCCTGCTGCAGAAGGACAGGACTAAGCGGCTGGGGGCCAAGGACGACTTTATG
GAGATCAAGAGTCATGTCTTCTTCTCCCTAATTAACTGGGATGATCTCATTAATAAGAAGAGTACTCCTCCTTTTAACCC
AAATGTGAGTGGACCCAGCGACCTGCGGCACTTTGATCCCGAGTTTACCGAAGAGCAGGTCCCCAACTCCATCGGCAGGT
CCCCCGACAGCATCCTCATCACGGCCAGCGTCAAGGAAGCGGCCGAGGCCTTCCTAGGCTTCTCCTACGCACCTCCCATG
GACTCATTCCTC

Alignment

ORF - retro_mmur_401 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.47 %
• Parental protein coverage: 74.75 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VQSILK-ISQPQEPELMNANPSPPPSPSQQINLGPSSNPHAKPSDFHFLKVIGKGSFGKVLLARHKAEEV
          .QSILK.ISQPQEPELMNANPSPPPSPSQQINLGPSSNP.AKPSDFHFLKVIGKGSFGKVLLARHKAEEV
Retrocopy IQSILK<ISQPQEPELMNANPSPPPSPSQQINLGPSSNPRAKPSDFHFLKVIGKGSFGKVLLARHKAEEV

Parental  FYAVKVLQKKAILKKKEEKHIMSERNVLLKNVKHPFW--LHFSFQTADK-YFV-DYIR---LFYHLQRER
          FYAVKVLQKKAILKK.EEKHIMS.RNVLLKNVK.PF...LHFSFQTADK.YFV.DYI....LFYHLQRER
Retrocopy FYAVKVLQKKAILKKEEEKHIMS*RNVLLKNVKRPFLVGLHFSFQTADKLYFVLDYINGGELFYHLQRER

Parental  CFLEPRARFYAAEIA-SALGYLHSLNIVYRDLKPENILLDSQGHIVLTDFGLCKENIEHNGTTSTFCGTP
          CFLEPRARFYAAEIA.SALGYLHSLNIVYR.LKPENILLDSQGH.VLTDFGLCKENIEHNGTTSTFCGTP
Retrocopy CFLEPRARFYAAEIA<SALGYLHSLNIVYRGLKPENILLDSQGHTVLTDFGLCKENIEHNGTTSTFCGTP

Parental  EYLAPEVLHKQPYDRTVDWWCLGAVLYEMLYGLPPFYSRNTAEMYDNILNKPLQLKPNITNSARHLLEGL
          EYLAPEVLHKQPYDRTVDWWCLGAVLYEMLYGLPPFYSRNTAEMYDNILNKPLQLKPNITNSA.HLLEGL
Retrocopy EYLAPEVLHKQPYDRTVDWWCLGAVLYEMLYGLPPFYSRNTAEMYDNILNKPLQLKPNITNSAGHLLEGL

Parental  LQKDRTKRLGAKDDFMEIKSHVFFSLINWDDLINKK-TPPFNPNVSGPSDLRHFDPEFTEEPVPNSIGRS
          LQKDRTKRLGAKDDFMEIKSHVFFSLINWDDLINKK.TPPFNPNVSGPSDLRHFDPEFTEE.VPNSIGRS
Retrocopy LQKDRTKRLGAKDDFMEIKSHVFFSLINWDDLINKKSTPPFNPNVSGPSDLRHFDPEFTEEQVPNSIGRS

Parental  PDSILITASVKEAAEAFLGFSYAPPMDSFL
          PDSILITASVKEAAEAFLGFSYAPPMDSFL
Retrocopy PDSILITASVKEAAEAFLGFSYAPPMDSFL

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_401 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_401 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006626	1 retrocopy	retro_chof_2212,
Erinaceus europaeus	ENSEEUG00000008758	1 retrocopy	retro_eeur_564,
Loxodonta africana	ENSLAFG00000012698	1 retrocopy	retro_lafr_875,
Microcebus murinus	ENSMICG00000007886	1 retrocopy	retro_mmur_401 ,
Microcebus murinus	ENSMICG00000015157	1 retrocopy	retro_mmur_1287,
Oryctolagus cuniculus	ENSOCUG00000014367	1 retrocopy	retro_ocun_1114,
Tursiops truncatus	ENSTTRG00000009699	1 retrocopy	retro_ttru_22,