RetrogeneDB ID: retro_etel_2075

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_48705:1426..2228(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000011385
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000019748
• Aliases: None
• Description: None

Sequence

>retro_etel_2075
ATGGCTGTCCCCTTCTCCCACCTGCTGTCTACCTGCCCAGGGCTCAAGTTCACAGCTTTGGCCAGAGCTGGATCTCTAGC
CACCAGTTTCTGCTTTGCCCCGAACCTTCAGGAGCCGCCAGTGAATGACAGAGGCTCTATCCTCCGAGCGCTGAGTACCC
AAACCTTCAAAAGCACAACAACGGCATAGCCTGTCACCTGACCTTAGCAGTCTATGCCTGGCTCTGTGACAAGACCACGC
CCCCTGGTTGGATGCTAGATCACTGTAACCAGACTGGTGTGGACAACCCTGGCCACCCCTTCATCAAGACTGTGGACACG
GAGGCAGGAGATGAGGAGACCTATGAAATATTTGCTGAGCTGTTTGACCCTGTAATCCAAGAATGACAAGATGGATCTGA
CCCCCTGGACAATGAAGCACCCTTCAGACCTGGATGCCAGCAAGATTCGTTCTGGCTACTTTGATGAGAGGTACGTATTG
TCCTCAAGAGTCAGAACGGGCCGAAGTATCAGAGGACTTAGTCTGCCTCCAGCCTGCACTCAGGCAGAGCAGTGAGAAGT
GGAACATGTCGTGGTGGATGTACTGAGTGGCCTGAAGGGTGATCTGACTGGACATGACTATCAGCTCAGTGAGGTGACAG
AGGCTGAGCAACAGCAGCTCACTGATGACCACTTGCTATTGGATAAGCCCTGTGCCCTTGCTGAACACAGCAGGAATGGC
TCGAGACTGGCCAGATGCTCGTGGACTCGGCCACAACAATGAGAAGAGCTTTCTGATCTGGGTGAATGAAGAGGATCATA
CG

Alignment

ORF - retro_etel_2075 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.23 %
• Parental protein coverage: 70.71 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAGPFSRLLSARPGLKFVALAGAGSLAAGF-LLRPEPVRAAVERRRLYPPSAEYPDLRKHNNCMASHLTP
          MA.PFS.LLS..PGLKF.ALA.AGSLA..F.LL.PEP..AA.E..RLYPPSAEYP.L.KHNN..A.HLT.
Retrocopy MAVPFSHLLSTCPGLKFTALARAGSLATSF<LLCPEPSGAASE*QRLYPPSAEYPNLQKHNNGIACHLTL

Parental  AVYARLCDKTTPTGWTLDQCIQTGVDNPGHPFIKTVGMVAGDEETYEIFAELFDPVIEERHNGYNPR-TM
          AVYA.LCDKTTP.GW.LD.C.QTGVDNPGHPFIKTV...AGDEETYEIFAELFDPVI.E...G..P..TM
Retrocopy AVYAWLCDKTTPPGWMLDHCNQTGVDNPGHPFIKTVDTEAGDEETYEIFAELFDPVIQE*QDGSDPL>TM

Parental  KHPTDLDATKIRSGNFDERYVLSSRVRTGRSIRGLSLPPACTRAERREVERVVVDALSGLKGDLTGRYYR
          KHP.DLDA.KIRSG.FDERYVLSSRVRTGRSIRGLSLPPACT.AE..EVE.VVVD.LSGLKGDLTG..Y.
Retrocopy KHPSDLDASKIRSGYFDERYVLSSRVRTGRSIRGLSLPPACTQAEQ*EVEHVVVDVLSGLKGDLTGHDYQ

Parental  LSEMTEAEQQQLIDDHFLFDK-PVSPLLTAAGMARDWPDARGIWHNNEKSFLIWVNEEDHT
          LSE.TEAEQQQL.DDH.L.DK.PV..L.TA.GMARDWPDARG..HNNEKSFLIWVNEEDHT
Retrocopy LSEVTEAEQQQLTDDHLLLDK>PVPLLNTA-GMARDWPDARGLGHNNEKSFLIWVNEEDHT

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_2075 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.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000008667	1 retrocopy	retro_etel_1667,
Echinops telfairi	ENSETEG00000019748	2 retrocopies	retro_etel_1343, retro_etel_2075 ,
Macaca mulatta	ENSMMUG00000007870	1 retrocopy	retro_mmul_240,
Tupaia belangeri	ENSTBEG00000012104	1 retrocopy	retro_tbel_4,
Tursiops truncatus	ENSTTRG00000005837	1 retrocopy	retro_ttru_1863,