XB-FEAT-22069202: Difference between revisions
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16MAY2023 | 16MAY2023 | ||
Xenopus gene was renamed, changing from ''sprr3, small proline rich protein 3'' to ''vgf , VGF nerve growth factor inducible''. | ''Xenopus'' gene was renamed, changing from ''sprr3, small proline rich protein 3'' to ''vgf , VGF nerve growth factor inducible''. | ||
Changed XB-GENE-22069203 Xtr Gene ID: 105945420 from sprr3 to vgf as | |||
1) NCBIi recognizes it as the ortholog of human VGF | |||
2) supported by synteny, with conserved flanking genes ''serpine1'' and ''ap1s1'' upstream and ''nat16'' (plus duplicates) downstream. | |||
SYNTENY PATTERNS: | |||
HumanChr1: SPRR4> SPRR1A> '''SPRR3'''> LOC(ncRNA)> SPRR1B> SPRR2D< SPRR2A< SPRR2B | |||
HumanCHR7: TRIM56> SERPINE1> AP1s1> '''VGF'''< NAT16< MOGAT3< PLOD3< ZNHITI> CLDN15> | |||
Xtrop.v9.1 scff48: ''nat16> XB5892957(unch) > [tRNAs] '''sprr3/vgf'''> ap1s1< [trnas] serpin1< LOC100495872'' | |||
Xtrop.v10.Chr3: ''LOC116409833(muc3)> serpine1> ap1s1> '''vgf>''' [tRNAs] XB5892957(unch? nat.14)> LOC100495706(nat16.13)> LOC116409835(nat-like.12)< XB5762451(nat.11)< LOC116409834(nat-like.10)< LOC100490742(nat-like.9)< LOC100490911(nat-like.8) XB5761890(nat16.7)< LOC116409523 (nat-like.6)< LOC116409836(nat-like.5)< LOC100490569(nat.4) < LOC101730755(nat.3)< LOC100491420(nat.2)< nat16< mogat3< mogat2.1<'' | |||
Xla.chr3L: serpine1.L> ap1s1.L> LOC108711739(vgf)> LOC108711740(nat16)< LOC108710379(nat)< LOC108711741(nat)< LOC108711742(nat)< LOC108710380(nat16)< LOC108710381(nat16-p)< LOC108710382(nat16p)< LOC121393059(natlike) LOC121401654(natike) < LOC121401655(lncRNA)< nat16.L< < mogat3.L< mogat2.1.L< | |||
Xla.chr3S: serpine1.S> ap1s1.S> '''LOC108703510(vgf)>''' LOC108703511(nat16.5)< LOC108703512(nat16.4)< XB5761890.S(nat16.3)< LOC108703513(nat16.2)< LOC121402082(ncRNA)< LOC108703454(unch/nat16.1?)< LOC108703514(mblac1 like)> LOC733301(tmem4l6m5.1) LOC108703455(tmem4l6m5.2)> LOC108703456(tmem4l6m5.3)> lamtor4.S> LOC108703516(trappc14) | |||
Revision as of 11:02, 16 May 2023
vgf
This is the community wiki page for the Xenopus vgf genes. Please feel free to enter here any information relevant to these genes that is not found elsewhere on Xenbase.
nomenclature changes
16MAY2023
Xenopus gene was renamed, changing from sprr3, small proline rich protein 3 to vgf , VGF nerve growth factor inducible.
Changed XB-GENE-22069203 Xtr Gene ID: 105945420 from sprr3 to vgf as
1) NCBIi recognizes it as the ortholog of human VGF
2) supported by synteny, with conserved flanking genes serpine1 and ap1s1 upstream and nat16 (plus duplicates) downstream.
SYNTENY PATTERNS:
HumanChr1: SPRR4> SPRR1A> SPRR3> LOC(ncRNA)> SPRR1B> SPRR2D< SPRR2A< SPRR2B
HumanCHR7: TRIM56> SERPINE1> AP1s1> VGF< NAT16< MOGAT3< PLOD3< ZNHITI> CLDN15>
Xtrop.v9.1 scff48: nat16> XB5892957(unch) > [tRNAs] sprr3/vgf> ap1s1< [trnas] serpin1< LOC100495872
Xtrop.v10.Chr3: LOC116409833(muc3)> serpine1> ap1s1> vgf> [tRNAs] XB5892957(unch? nat.14)> LOC100495706(nat16.13)> LOC116409835(nat-like.12)< XB5762451(nat.11)< LOC116409834(nat-like.10)< LOC100490742(nat-like.9)< LOC100490911(nat-like.8) XB5761890(nat16.7)< LOC116409523 (nat-like.6)< LOC116409836(nat-like.5)< LOC100490569(nat.4) < LOC101730755(nat.3)< LOC100491420(nat.2)< nat16< mogat3< mogat2.1<
Xla.chr3L: serpine1.L> ap1s1.L> LOC108711739(vgf)> LOC108711740(nat16)< LOC108710379(nat)< LOC108711741(nat)< LOC108711742(nat)< LOC108710380(nat16)< LOC108710381(nat16-p)< LOC108710382(nat16p)< LOC121393059(natlike) LOC121401654(natike) < LOC121401655(lncRNA)< nat16.L< < mogat3.L< mogat2.1.L<
Xla.chr3S: serpine1.S> ap1s1.S> LOC108703510(vgf)> LOC108703511(nat16.5)< LOC108703512(nat16.4)< XB5761890.S(nat16.3)< LOC108703513(nat16.2)< LOC121402082(ncRNA)< LOC108703454(unch/nat16.1?)< LOC108703514(mblac1 like)> LOC733301(tmem4l6m5.1) LOC108703455(tmem4l6m5.2)> LOC108703456(tmem4l6m5.3)> lamtor4.S> LOC108703516(trappc14)