RetrogeneDB ID: retro_etel_1134

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_216282:19877..20490(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SERPINB6
• Ensembl ID: ENSETEG00000012630
• Aliases: None
• Description: serpin peptidase inhibitor, clade B (ovalbumin), member 6 [Source:HGNC Symbol;Acc:8950]

Sequence

>retro_etel_1134
GAGGAGTTCAGGAAACATATCAACACCTGGGTAGCCAAGAAGACAGAAAATAAAATTACAGAGTGTCCGTGTCCAGATAC
AGTTGATTCAAGAACTAACCTGCTTCTTCTGGTCAACGCCATCTACTTCAAAGGAACCTGGAACCATCAGTTGAACAAAA
AGCACACCAAGGAAAGACTTTTTAAAAATCAGCAAGGAGGAAAAGCTTGTGCAAATGATGTTCAAGAAATCTACTTTTTA
AATGACCTACCTGGGAGAAAAATTCACCCAAATTCTCGTGCTTCCCAATGTCAAGAAAGAGCCGAATGCGATCATCATGC
TTCCAGATGAAGACGCTGATTGGAGCACGTTGGAGGAAGATCTTACTTATGAGAAATTGACAGAGTGGACAAGGCCAGAC
CCGGAGGAGGAGGAAGAGATAGACGTCTTCCTTCCTAGATTCGGGGCGGAGGAGCGTTAGGACGTGGAGAAATCCTTCGC
AGTCTGGGCATGCCTGAGGCCTTTGACCAGGGCAAGGCCGATTTCCGGAATATCGTCCAGGAGAAGCCTGCATCTGTCCA
AGCTTGTGCACAAAGCTTTTGTGGAGATCCATGAGGAAGGCACAGAGGCAGCT

Alignment

ORF - retro_etel_1134 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.15 %
• Parental protein coverage: 63.47 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EKSREHINSWVAEKTEGKITESLSSDSVDSCTKLIL-VNAIYFKGKWDKPFSKASTRKSTFKINQVX-EK
          E..R.HIN.WVA.KTE.KITE....D.VDS.T.L.L.VNAIYFKG.W.....K..T....FK.NQ...EK
Retrocopy EEFRKHINTWVAKKTENKITECPCPDTVDSRTNLLLLVNAIYFKGTWNHQLNKKHTKERLFK-NQQG>EK

Parental  PIQMMFQESMVKLTYVQEISTQILMLPYVGRELNMIIMLPDENIDLKMVENELTYERFLEWTRDDKMDTR
          ..QMMF..S....TY..E..TQIL.LP.V..E.N.IIMLPDE..D....E..LTYE...EWTR.D.....
Retrocopy LVQMMFKKSTF*MTYLGEKFTQILVLPNVKKEPNAIIMLPDEDADWSTLEEDLTYEKLTEWTRPDPEEEE

Parental  EVDVFLPRFKLEESYDLENS-LPTLGMVDAFDEARADFSGMSPKRDLFVSKVAHKAF-VEVNEEGTEAA
          E.DVFLPRF..EE..D.E.S.L..LGM..AFD...ADF..........V...A...F.VE..EEGTEAA
Retrocopy EIDVFLPRFGAEER*DVEKS<LRSLGMPEAFDQGKADFRNIVQEKPASVQACA-QSF>VEIHEEGTEAA

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_1134 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000017483	1 retrocopy	retro_btau_827,
Echinops telfairi	ENSETEG00000012630	1 retrocopy	retro_etel_1134 ,
Monodelphis domestica	ENSMODG00000005468	2 retrocopies	retro_mdom_510, retro_mdom_602,
Mus musculus	ENSMUSG00000060147	2 retrocopies	retro_mmus_3191, retro_mmus_3192,