RetrogeneDB ID:

retro_shar_623

Retrocopy
location
Organism:Tasmanian devil (Sarcophilus harrisii)
Coordinates:GL856820.1:73419..73728(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CSTB
Ensembl ID:ENSSHAG00000017952
Aliases:None
Description:cystatin B (stefin B) [Source:HGNC Symbol;Acc:2482]


Retrocopy-Parental alignment summary:






>retro_shar_623
AGTGTGCTTGCAAGGATGGTGTTCAGGGGAGCTTTGGCTGCTAAACCGAGTGACAGATAAAACAAACCAGATTGCAGAGG
AGGTAAAAGGCACAGCTTCAAGAGAAAGAAAATAGGAAGTTTCTAGTCTTTAAGACTGTGGAATTTAGAACTCAAGTGGT
TGCTGAACAAAATCCTTTATTAAGTTTCAGGTTGATGAAGAGGAATATGTATATATACAAGTATTCAAAAGTTTTTCTCA
TGAAAACAAGTCATTGGCTTTCTCCAGTTATCAAAACAAAAGACCAAGAATGATAAGCTAGTCTATTTT

ORF - retro_shar_623 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 55.14 %
Parental protein coverage: 99.04 %
Number of stop codons detected: 0
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalSRFAKMMCGGTSATKPA-TAETQRIADEVK-TQLEAKENRKFPVFKTMEFKSQVVAG-TNYFIKVHVGEE
S..A.M...G..A.KP..T..T..IA.EVK..QL..KENRKF.VFKT.EF..QVVA..T..FIK..V.EE
RetrocopySVLARMVFRGALAAKPS>TDKTNQIAEEVK>AQLQEKENRKFLVFKTVEFRTQVVAE<TKSFIKFQVDEE
ParentalEFIHMRVFESLPHENKPLLLSSYQT-NKTKDDELAYF
E.....VF.S..HENK.L..SSYQ...KTK.D.L.YF
RetrocopyEYVYIQVFKSFSHENKSLAFSSYQN<QKTKNDKLVYF

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






Sarcophilus harrisii was not studied using RNA-Seq expression data.
Sarcophilus harrisii was not studied using ChIP-Seq data.
Sarcophilus harrisii was not studied using EST data.
Sarcophilus harrisii was not studied using FANTOM5 data.
retro_shar_623 was not experimentally validated.

Retrocopy orthology:
Sarcophilus harrisii 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 8 parental genes, and 11 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000005241 retrocopy
Loxodonta africana ENSLAFG000000026641 retrocopy
Myotis lucifugus ENSMLUG000000224571 retrocopy
Macaca mulatta ENSMMUG000000123031 retrocopy
Otolemur garnettii ENSOGAG000000061012 retrocopies
Pteropus vampyrus ENSPVAG000000070221 retrocopy
Rattus norvegicus ENSRNOG000000012011 retrocopy
Sarcophilus harrisii ENSSHAG00000017952 3 retrocopies
retro_shar_229, retro_shar_623 , retro_shar_699,



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