RetrogeneDB ID: retro_dord_659

Retrocopy location

• Organism: Kangaroo rat (Dipodomys ordii)
• Coordinates: scaffold_4900:28428..28809(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDORG00000008867
• Aliases: None
• Description: None

Sequence

>retro_dord_659
ATGAGAAGTACAGGAGGATTTGGCCTGCTCAGCATCCTGCTCATCCTGGCGGTCCTTTCACACTCAGGTTTTAGCCTCTG
CTGCTACAACTGTCCAAGCCCAGTTTCAGACTGCAATATAAACATGACCTGTCCATCTAACCTTGACGCATGTCTCTTTG
CACAATCTGGGCCCCGCATCTATCGCAACTGTTGGGCATTGAGGGATTGTACTTTTGACTTCATTTCCAGACGAATAGGA
GAGTCTGAGATCCAGTACAGCTGCTGCCAGGAAGACCTTTGTAACCTCCTACTCAAATCTGCTGGAGTAGCAGCCACCGT
ATCAGGGAAGCTGTTGTTGCTGGCAATGCCATTTCTGGCAGCAATGTGGAACCTTTGTCTC

Alignment

ORF - retro_dord_659 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.34 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRGTGGFGLLSILLILAVLAHSGFSLRCYNCPNPVSDCNINMTCPSNLDACLFAQSGPRIYRNCWALRDC
          MR.TGGFGLLSILLILAVL.HSGFSL.CYNCP.PVSDCNINMTCPSNLDACLFAQSGPRIYRNCWALRDC
Retrocopy MRSTGGFGLLSILLILAVLSHSGFSLCCYNCPSPVSDCNINMTCPSNLDACLFAQSGPRIYRNCWALRDC

Parental  TFDFISRRIGESEIQYSCCQEDLCNLILKSAGVAATVSE--AVLAIPFLAAMWNLCL
          TFDFISRRIGESEIQYSCCQEDLCNL.LKSAGVAATVS.....LA.PFLAAMWNLCL
Retrocopy TFDFISRRIGESEIQYSCCQEDLCNLLLKSAGVAATVSGKLLLLAMPFLAAMWNLCL

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_659 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000028508	1 retrocopy	retro_cfam_1431,
Dipodomys ordii	ENSDORG00000008867	1 retrocopy	retro_dord_659 ,
Mustela putorius furo	ENSMPUG00000011525	1 retrocopy	retro_mputfur_512,
Tursiops truncatus	ENSTTRG00000016371	1 retrocopy	retro_ttru_1655,