RetrogeneDB ID: retro_cele_4

Retrocopy location

• Organism: Caenorhabditis elegans
• Coordinates: V:19899490..19900291(+)
• Located in intron of: Y60A3A.13

Retrocopy information

• Ensembl ID: Y116F11B.14
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Y71G12B.22
• Ensembl ID: Y71G12B.22
• Aliases: None
• Description: Protein Y71G12B.22 [Source:RefSeq peptide;Acc:NP_490878]

Sequence

>retro_cele_4
ATGACGAACGGCATTTTTAAGCACTCCAACCAATCAATACTGGAAGATCAAGACCATGTCAAAAAATCGACCGTTGAAAT
CCTGATGCCCGCATATGTAATTGGAGGCCCCATAAGAAGTATTCGAGTGGATAAGGATCGACTTTTTGTACTAGGAATGA
AGAACCACCCGGAAGTCATTGATCTTACCCAGATGAGCCACGGTACAAGCCTGATTCTCGAGAAAATCATGTCCGGAAAT
CGCTACTACACCACACAAATCTCGATGAATCAGGCTGCCGAGCTGTGTCACGTGGCACACGAGCTGAAACTCGTGAATCT
TCTGAAGCTGGTGGAGATGGATATGATCAGGCGTCCGTCTACATCGATGAAGCACGCCGTCGATGCTCTCGTTTTGGCGT
TGAAGTTTGGAATGCTGGAGGCTGTGAACAAGTTGATCGATGAGATTATTTTCGAGTTTTTCAACGGCCTCGGGCTCGTC
GGGTACTGTAAGAGCTCGACGGCGCTGGAAATGATTTTTGATAAGAACGAGATGATGTTGAAAGAGGAGATTGAAGTTGG
ACGGTTAAATTCAGAATGGAATGAGCCGTTGCCTGTTGGCCAAGAAGTCGTCCCGTCGTTGCCACGTGGAAATAATGCTC
AGATCCCGAGAATCATGCTTAATGTGGCTAAGGAAAGAATTCGTAGCCTGGTGGCCCGCCCGATTAACTCGGTCAAAAAT
GGATTTGCGTGGATTTCGGCACAAAATTTGAGACGCCGTGGACCACGGAACCATCAAGATTTCCCGAATTTTCCGGATTG
A

Alignment

ORF - retro_cele_4 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.32 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPAYVIGGPIRSIRVDKDRLFVLGMKNHPEVIDLTQMSHGTSLILEKIMSGNRDYTTQISMNQAAELCHV
          MPAYVIGGPIRSIRVDKDRLFVLGMKNHPEVIDLTQMSHGTSLILEKIMSGNR.YTTQISMNQAAELCHV
Retrocopy MPAYVIGGPIRSIRVDKDRLFVLGMKNHPEVIDLTQMSHGTSLILEKIMSGNRYYTTQISMNQAAELCHV

Parental  AHELKLVNLLKLVEMDMIRRPSTSMKHAVDALVLALKFGMLEAVNKLIDEIIFEFFNGRGLVGYCKSFTA
          AHELKLVNLLKLVEMDMIRRPSTSMKHAVDALVLALKFGMLEAVNKLIDEIIFEFFNG.GLVGYCKS.TA
Retrocopy AHELKLVNLLKLVEMDMIRRPSTSMKHAVDALVLALKFGMLEAVNKLIDEIIFEFFNGLGLVGYCKSSTA

Parental  LEMIFAKNEMMLKEEIEVGRLNSEWNEPLPVGQEVVPSLPRGNNAQIPRIMLNVAKERIRSLVARPINSV
          LEMIF.KNEMMLKEEIEVGRLNSEWNEPLPVGQEVVPSLPRGNNAQIPRIMLNVAKERIRSLVARPINSV
Retrocopy LEMIFDKNEMMLKEEIEVGRLNSEWNEPLPVGQEVVPSLPRGNNAQIPRIMLNVAKERIRSLVARPINSV

Parental  KNGFAWISAQNLRRRGPRNHQDFPNFPD
          KNGFAWISAQNLRRRGPRNHQDFPNFPD
Retrocopy KNGFAWISAQNLRRRGPRNHQDFPNFPD

Legend:

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

Expression

RNA-Seq

Caenorhabditis elegans was not studied using RNA-Seq expression data.

ChIP-Seq

Caenorhabditis elegans was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cele_4 retrocopy.

TSS

Caenorhabditis elegans was not studied using FANTOM5 data.

Lab

retro_cele_4 was not experimentally validated.

Homology

Retrocopy orthology:

Caenorhabditis elegans 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Caenorhabditis elegans	Y71G12B.22	1 retrocopy	retro_cele_4 ,