RetrogeneDB ID: retro_etel_1376

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_256318:785..1148(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF3J
• Ensembl ID: ENSETEG00000005052
• Aliases: None
• Description: eukaryotic translation initiation factor 3, subunit J [Source:HGNC Symbol;Acc:3270]

Sequence

>retro_etel_1376
GTTAATAATACAGTTTTTGGAATAGATGCTATGAACCCATCTTCGAGAGATGACTTCACAGAATTCGGAAAGTTACTAAA
AGATAAAATTACACAATATGAAAAGTCACTATATTACGCCAGCTTTTTGGAAGCCTTAGTTCGAGATGTGTGTATTTCAT
TGGAAATAGATGACTGGAAAAAGATTACCAATTCTTTGACTGTGCTTTGCAGTGAAAAACAGAAGCAAGAAAAGCAAAGC
AAAGCTAAAAAGAAGAAGAAAGATGTGGTTCCTGGAGGGGGGTTAAAGGCGACCATGAAGGATGACCTGGCCGACTATGG
TGGTTATGACGGAGGGTACATACAAGACTTTGAAGACTTCATG

Alignment

ORF - retro_etel_1376 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.12 %
• Parental protein coverage: 57.89 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VNNTVFGIDAMNPSSRDDFTEFGKLLKDKITQYEKSLYYASFLEALVRDVCISLEIDDLKKITNSLTVLC
          VNNTVFGIDAMNPSSRDDFTEFGKLLKDKITQYEKSLYYASFLEALVRDVCISLEIDD.KKITNSLTVLC
Retrocopy VNNTVFGIDAMNPSSRDDFTEFGKLLKDKITQYEKSLYYASFLEALVRDVCISLEIDDWKKITNSLTVLC

Parental  SEKQKQEKQSKAKKKKKGVVPGGGLKATMKDDLADYGGYDGGYIQDFEDFM
          S.................VVPGGGLKATMKDDLADYGGYDGGYIQDFEDFM
Retrocopy SXXXXXXXXXXXXXXXXXVVPGGGLKATMKDDLADYGGYDGGYIQDFEDFM

Legend:

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

Expression

RNA-Seq

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq

Echinops telfairi was not studied using ChIP-Seq data.

EST

Echinops telfairi was not studied using EST data.

TSS

Echinops telfairi was not studied using FANTOM5 data.

Lab

retro_etel_1376 was not experimentally validated.

Homology

Retrocopy orthology:

Echinops telfairi 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002412	1 retrocopy	retro_cjac_589,
Echinops telfairi	ENSETEG00000005052	1 retrocopy	retro_etel_1376 ,
Gorilla gorilla	ENSGGOG00000000548	2 retrocopies	retro_ggor_1687, retro_ggor_41,
Macropus eugenii	ENSMEUG00000010372	1 retrocopy	retro_meug_256,
Monodelphis domestica	ENSMODG00000017696	1 retrocopy	retro_mdom_141,
Mus musculus	ENSMUSG00000027236	1 retrocopy	retro_mmus_18,
Nomascus leucogenys	ENSNLEG00000005568	1 retrocopy	retro_nleu_2848,