RetrogeneDB ID: retro_dord_591

Retrocopy location

• Organism: Kangaroo rat (Dipodomys ordii)
• Coordinates: scaffold_37229:4067..4550(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Mpzl1
• Ensembl ID: ENSDORG00000015874
• Aliases: None
• Description: myelin protein zero-like 1 [Source:MGI Symbol;Acc:MGI:1915731]

Sequence

>retro_dord_591
CGGGGTCAGTGCACCCAGAGGACCATGGCAGCGTCCGCCCGACTCGGGGCATTGATGGCAACCTCGCACCGCAGGCGCTG
GCTGTGGTCGGGGCTCGTAGCTGCGCTCTGGCTGTTGACAGCCAGAGTGTCAACGTTGGAAGTATATACCCCAAAAGAAA
TCTCTGTGGCAAATGGGACACAAGGGAAGCTCACATGCACATTCAAGTCCACCAATGTGACTGGCCGGCTAACCACTGTT
TCCTGGAGCTTCCGGCCAGAGGGGACTAACACCACTGTGTCGTTTTTCCACTACTTCCAAGGGCAAGTATACTTTGGGAA
TTATCCACCATTTAAGGACAGAATCAGCTGGGCTGGAGACCTGGACAAGAAGGATGCATCCATCAACATAGAAAATATGC
AGTTTATACACAATGGCACCTACATCTGTGATGTCAAAAACCCTCCTGACATTGTTGTCCAGCCTGGCCGTATTAGACTC
TAT

Alignment

ORF - retro_dord_591 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.41 %
• Parental protein coverage: 65.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RGACTQRTMAASARLGALMATSHRRRWLCSGLVAALWLLTARVSALEVYTPKEIYVANGTQGKLTCTFKS
          RG.CTQRTMAASARLGALMATSHRRRWL.SGLVAALWLLTARVS.LEVYTPKEI.VANGTQGKLTCTFKS
Retrocopy RGQCTQRTMAASARLGALMATSHRRRWLWSGLVAALWLLTARVSTLEVYTPKEISVANGTQGKLTCTFKS

Parental  TNVTSRLTTVSWSFQPEGTDTTVSFFHYSQGQVYFGNYPPFKDRISWAGDLDKKDASINIENMQFIHNGT
          TNVT.RLTTVSWSF.PEGT.TTVSFFHY.QGQVYFGNYPPFKDRISWAGDLDKKDASINIENMQFIHNGT
Retrocopy TNVTGRLTTVSWSFRPEGTNTTVSFFHYFQGQVYFGNYPPFKDRISWAGDLDKKDASINIENMQFIHNGT

Parental  YICDVKNPPDIVVQPGHIRLY
          YICDVKNPPDIVVQPG.IRLY
Retrocopy YICDVKNPPDIVVQPGRIRLY

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_591 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000003430	2 retrocopies	retro_dord_271, retro_dord_275,
Dipodomys ordii	ENSDORG00000015874	1 retrocopy	retro_dord_591 ,