RetrogeneDB ID: retro_dord_82

Retrocopy location

• Organism: Kangaroo rat (Dipodomys ordii)
• Coordinates: GeneScaffold_2346:95542..95886(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDORG00000009236
• Aliases: None
• Description: None

Sequence

>retro_dord_82
CACAGCATGGGAGCCTGGTGGACCTGGCCTGAAAACTTCGATGCTCCATTGGTTTTTTACCTGACAGAAGAACAGGAGAA
AGACATATTCGGCCAAGGGGACGCATTCCTCCCCTGCATTGAGATACACAGGCACACCCTCATTCAGCTGGAGCCCTGGT
TCACAGCCACAGGCCACACTCAAGTCACTGTGGTGGGTCCACCAAAGGCCAGGCAGTGGCTCAGGAACATGGTTCAGTAT
TTGGGCACCAGGATGCTCGTTGTCAAGCCCAAGGTTTGGAAATGCTGTAGCATGTCCGGAGCCAGCCTCTCACCAAGGAG
GACTTGGCCTTTTCTTTCATTGCT

Alignment

ORF - retro_dord_82 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.07 %
• Parental protein coverage: 72.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HSMGAWWTWPENFDAPLVFYLTEEQEKVIFGQGDAFLPCIEKHSHTLIQLEPWFTATSHTQVTVVGPPKA
          HSMGAWWTWPENFDAPLVFYLTEEQEK.IFGQGDAFLPCIE.H.HTLIQLEPWFTAT.HTQVTVVGPPKA
Retrocopy HSMGAWWTWPENFDAPLVFYLTEEQEKDIFGQGDAFLPCIEIHRHTLIQLEPWFTATGHTQVTVVGPPKA

Parental  KQWLRNMVQYL-GHQDARCQAQGYQMLQSVRSQPLTNKDLAASLSA
          .QWLRNMVQYL.GHQDARCQAQG..ML..VRSQPLT..DLA.S..A
Retrocopy RQWLRNMVQYL<GHQDARCQAQGLEML*HVRSQPLTKEDLAFSFIA

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_82 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.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000009236	4 retrocopies	retro_dord_249, retro_dord_47, retro_dord_607, retro_dord_82 ,
Microcebus murinus	ENSMICG00000006451	1 retrocopy	retro_mmur_647,
Macaca mulatta	ENSMMUG00000018573	1 retrocopy	retro_mmul_84,
Mus musculus	ENSMUSG00000067750	1 retrocopy	retro_mmus_464,
Oryctolagus cuniculus	ENSOCUG00000028154	1 retrocopy	retro_ocun_735,
Otolemur garnettii	ENSOGAG00000006102	1 retrocopy	retro_ogar_2275,