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ID kynurenine pathway in C gigas

Open sr320 opened this issue 2 years ago • 1 comments

Based on NCBI transcripts in this snail paper : https://d.pr/f/lz7GRE see if homologs are present in C. gigas. Should just be able to create multi-fasta and blast.

Do add link to snail multi-fasta here so can use in other species..

for later reference a few other papers : https://d.pr/f/Msnaxo

sr320 avatar Nov 14 '23 02:11 sr320

I'm getting ready to start in on this, but just wanted to post some info that's already in NCBI:

cgig-kynurenine-ncbi-dataset.csv

Chromosome Accession Begin End Name Symbol Gene ID Gene Type Transcripts accession Protein accession Protein length
1 NC_047559.1 34176953 34183179 kynurenine--oxoglutarate transaminase 3-like LOC105325286 105325286 protein-coding XM_011424787.3 XP_011423089.2 423
1 NC_047559.1 34185813 34191340 kynurenine--oxoglutarate transaminase 3-like LOC105325285 105325285 protein-coding XM_011424785.3 XP_011423087.2 445
3 NC_047561.1 7303437 7313822 kynurenine 3-monooxygenase LOC105326901 105326901 protein-coding XM_011427135.3 XP_011425437.2 448
3 NC_047561.1 16118245 16133504 kynurenine 3-monooxygenase LOC105346010 105346010 protein-coding XM_011454456.3 XP_011452758.2 469
5 NC_047563.1 6745429 6752411 kynurenine formamidase LOC105336362 105336362 protein-coding XM_011440661.3 XP_011438963.2 312
7 NC_047565.1 57348671 57358536 kynurenine--oxoglutarate transaminase 3 isoform X1 LOC105327675 105327675 protein-coding XM_020067008.2 XP_019922567.2 464
10 NC_047568.1 10067872 10080710 kynurenine/alpha-aminoadipate aminotransferase, mitochondrial isoform X1 LOC105325199 105325199 protein-coding XM_034456076.1 XP_034311967.1 428

kubu4 avatar Nov 15 '23 17:11 kubu4