XB-FEAT-17329844: Difference between revisions
| (2 intermediate revisions by the same user not shown) | |||
| Line 21: | Line 21: | ||
* 3rd best match is to KLK7 genes in 89 spp. | * 3rd best match is to KLK7 genes in 89 spp. | ||
= | =synteny= | ||
Xtrop protein: | |||
Xtrop.Chr1: misp< palm< XB17329844(prss57l)> LOC105945763(prkcd)< pgpep1< timm10> | |||
Xlaevis.Chr1L: LOC108712598(misp)< palm.L< XB17329844(prss57l)> LOC108712617(pgpep1)< timm10> | |||
Xla.Chr1S: LOC108706851(misp)< palm.S< pgpep1.S< timm10.S> | |||
'''looking for conserved flanking genes in human:''' | |||
Human chr19: PALM> MISP> PTBP1> PLPPR3< AZU1> PRTN3> ELANE> | |||
Human chr19: PDE4C< IQCN< JUNO LSM4< PGPEP1> GDF15 LRRC25< SSBP4> ISYNA1 | |||
Human CHR11: SLC43A3< RTN4RL2> SLC43A1< TIMM10< SMTNL1> UBE2L6< SERPING1> YPEL4< | |||
'''Conclusions from orthology and synteny analaysis:''' | |||
* NO v10 Xalevis.S model for ''prss57'' | |||
* This gene is also on Chr1, but is not a tandem duplication , so doesn’t get .2 | |||
* SYNTENY NOT CONSERVED WITH HUMAN- DOESN’T HELP US ID/NAME the GENE | |||
* We will call this gene a 'prss57-like gene.' | |||
* no orthologs currently assignable | |||
=proteins for ''prss57l'' genes= | |||
'''Xtrop protein: | |||
serine protease 57 [Xenopus tropicalis] | serine protease 57 [Xenopus tropicalis] | ||
NCBI Reference Sequence: XP_002937430.1 | NCBI Reference Sequence: XP_002937430.1''' | ||
>XP_002937430.1 serine protease 57 [Xenopus tropicalis] | >XP_002937430.1 serine protease 57 [Xenopus tropicalis] | ||
| Line 34: | Line 59: | ||
LVCGDRVEGVVSFSGSYCGDPHTPDVYTRVTSFLDWIQETISEF | LVCGDRVEGVVSFSGSYCGDPHTPDVYTRVTSFLDWIQETISEF | ||
X.laevis.L protein: | '''X.laevis.L protein: | ||
serine protease 57 isoform X2 [Xenopus laevis] | serine protease 57 isoform X2 [Xenopus laevis] | ||
NCBI Reference Sequence: XP_041417826.1 | NCBI Reference Sequence: XP_041417826.1''' | ||
>XP_041417826.1 serine protease 57 isoform X2 [Xenopus laevis] | >XP_041417826.1 serine protease 57 isoform X2 [Xenopus laevis] | ||
Latest revision as of 08:02, 1 June 2023
prss57l
This is the community wiki page for the gene prss57l please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase.
nomenclature changes
26APRIL2023
Xenopus gene symbol and name changed from XB17329844 [provisional] to prss57, serine protease 57
1JUNE2023
Xenopus gene symbol and name changed from prss57, serine protease 57 TO prss57l, serine protease 57 like
orthology
DIOPT/EggNog homology group matches: Xlaevis : XP_041417826.1 and Xtrop XP_002937430.1 give the same results:
- 113proteins/93 species of PRSS57 PROTEINS/GENE HOMOLOGY GROUP ( best match)
- >1800 PROTEINS/247 species from fungi to worms to vertebrates (birds reptile fish mammals) of other PRSS## genes, ( eg prss22, 27, 48 45 55 8 21 12 54 56 53 33 ) including 127 sequences from Xenopus/Silurana, prss8,57 tmprss6,2 ( 2nd best match)
- 3rd best match is to KLK7 genes in 89 spp.
synteny
Xtrop.Chr1: misp< palm< XB17329844(prss57l)> LOC105945763(prkcd)< pgpep1< timm10>
Xlaevis.Chr1L: LOC108712598(misp)< palm.L< XB17329844(prss57l)> LOC108712617(pgpep1)< timm10>
Xla.Chr1S: LOC108706851(misp)< palm.S< pgpep1.S< timm10.S>
looking for conserved flanking genes in human:
Human chr19: PALM> MISP> PTBP1> PLPPR3< AZU1> PRTN3> ELANE>
Human chr19: PDE4C< IQCN< JUNO LSM4< PGPEP1> GDF15 LRRC25< SSBP4> ISYNA1
Human CHR11: SLC43A3< RTN4RL2> SLC43A1< TIMM10< SMTNL1> UBE2L6< SERPING1> YPEL4<
Conclusions from orthology and synteny analaysis:
- NO v10 Xalevis.S model for prss57
- This gene is also on Chr1, but is not a tandem duplication , so doesn’t get .2
- SYNTENY NOT CONSERVED WITH HUMAN- DOESN’T HELP US ID/NAME the GENE
- We will call this gene a 'prss57-like gene.'
- no orthologs currently assignable
proteins for prss57l genes
Xtrop protein:
serine protease 57 [Xenopus tropicalis]
NCBI Reference Sequence: XP_002937430.1
>XP_002937430.1 serine protease 57 [Xenopus tropicalis] MMMHLVLLTAALFSLPSSETYRIVGGHEAKPHSRPYMVSLQRQDKSHFCGGTLIHPKWVLTAAHCQEGWS MDLTRVVLGAHWLYWSDRPVQVFRTLKFVQHPQFNPQTFQSDLLLLKLNDSVHFSPAVRTIPLPAPNTDV IPGTACSVAGWGLTSDSGTRPFALMEADVDVISRMSCNKTWLGGIDESMLCTATPGAPFKGFCDGDSGGP LVCGDRVEGVVSFSGSYCGDPHTPDVYTRVTSFLDWIQETISEF
X.laevis.L protein:
serine protease 57 isoform X2 [Xenopus laevis]
NCBI Reference Sequence: XP_041417826.1
>XP_041417826.1 serine protease 57 isoform X2 [Xenopus laevis] MVSLQTPFQSHFCGGTLIHPKWVLTAAHCQEVGSLDVTRVVLGAHRLHLPDRSVQVFSTLKSVQHPEYNP QTFQSDILLLKLNGSAKINPAVRTLPLPVPNTDVIPGTSCSVAGWGSTFNARSKFFPLMETDVDIVNRKD CNITWLGGISESMLCTATPGAPFKGFCDGDSGGPLVCRGRVEGVVSFSGQYCGDPRTPDVYTRVTSFLDW IQKTISTF