RetrogeneDB ID: retro_dord_497

Retrocopy location

• Organism: Kangaroo rat (Dipodomys ordii)
• Coordinates: scaffold_23627:13417..13702(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Golga7b
• Ensembl ID: ENSDORG00000015475
• Aliases: None
• Description: golgi autoantigen, golgin subfamily a, 7B [Source:MGI Symbol;Acc:MGI:1918396]

Sequence

>retro_dord_497
TTTGAAGAAACACTTCAAACTCTAAATCATCTTTATGCAGAAGCAGAGAAGCTTGGGGGCCAGTCATATCTTGAAGGCTG
TTTAGCTTGTTTAATAGCATATGCCATTGTCTTGTGCATGGAAACCCATCATGAGAAGGTTCTGCAGAAAATCTCCAAAT
ACATTCAAGAACAGAATGAGAAGATATATGCTCCCCAAGGCCTCCTCCTGACAGACCCCATTGAGAGAGGACTTCGAGTT
ATTGAAATTACCATTTCTGAAGACAGAGGTTTGAGCAGTGGAGGA

Alignment

ORF - retro_dord_497 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.51 %
• Parental protein coverage: 58.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FEETVKTLNGFYAEAEKIGGSSYLEGCLACATAYFIFLCMETHYEKVLKKISRYIQEQNEKIFAPRGLLL
          FEET..TLN..YAEAEK.GG.SYLEGCLAC..AY.I.LCMETH.EKVL.KIS.YIQEQNEKI.AP.GLLL
Retrocopy FEETLQTLNHLYAEAEKLGGQSYLEGCLACLIAYAIVLCMETHHEKVLQKISKYIQEQNEKIYAPQGLLL

Parental  TDPVERGMRVIEISIYEDRCSSGSSSSG
          TDP.ERG.RVIEI.I.EDR...G.SS.G
Retrocopy TDPIERGLRVIEITISEDR---GLSSGG

Legend:

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

Expression

RNA-Seq

Dipodomys ordii was not studied using RNA-Seq expression data.

ChIP-Seq

Dipodomys ordii was not studied using ChIP-Seq data.

EST

Dipodomys ordii was not studied using EST data.

TSS

Dipodomys ordii was not studied using FANTOM5 data.

Lab

retro_dord_497 was not experimentally validated.

Homology

Retrocopy orthology:

Dipodomys ordii 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000015475	1 retrocopy	retro_dord_497 ,
Macropus eugenii	ENSMEUG00000001446	2 retrocopies	retro_meug_1793, retro_meug_276,
Microcebus murinus	ENSMICG00000000199	1 retrocopy	retro_mmur_357,