Difference between revisions of "Talk:Working Group:Sequence Features"

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         CHROMOSOME_IV TF_binding_site TF_binding_site 2306593 2306606 . - . Feature "WBsf047478" ; TF_ID "WBTranscriptionFactor000052" ; TF_name "DAF-19"
 
         CHROMOSOME_IV TF_binding_site TF_binding_site 2306593 2306606 . - . Feature "WBsf047478" ; TF_ID "WBTranscriptionFactor000052" ; TF_name "DAF-19"
 
         CHROMOSOME_IV TF_binding_site TF_binding_site 2306593 2306606 . - . Feature "WBsf047505" ; TF_ID "WBTranscriptionFactor000052" ; TF_name "DAF-19"
 
         CHROMOSOME_IV TF_binding_site TF_binding_site 2306593 2306606 . - . Feature "WBsf047505" ; TF_ID "WBTranscriptionFactor000052" ; TF_name "DAF-19"
 +
Resolved: WBsf047505 merged into WBsf047478 - GW
 
     These two need to be merged - they are from different papers. I suggest WBsf019088 be retired as it has an incorrect SO_term - needs to be SO:0000235
 
     These two need to be merged - they are from different papers. I suggest WBsf019088 be retired as it has an incorrect SO_term - needs to be SO:0000235
 
         CHROMOSOME_V TF_binding_site TF_binding_site 10671938 10671944 . + . Feature "WBsf019088" ; TF_ID "WBTranscriptionFactor000061" ; TF_name "CEH-22"
 
         CHROMOSOME_V TF_binding_site TF_binding_site 10671938 10671944 . + . Feature "WBsf019088" ; TF_ID "WBTranscriptionFactor000061" ; TF_name "CEH-22"

Revision as of 15:37, 22 September 2014

Duplicated Features

   These two need to be merged - I suggest WBsf019227 be retired as it is in the opposite sense to its gene.
       CHROMOSOME_I TF_binding_site TF_binding_site 10245805 10245811 . - . Feature "WBsf019227" ; TF_ID "WBTranscriptionFactor000101" ; TF_name "LAG-1"
       CHROMOSOME_I TF_binding_site TF_binding_site 10245805 10245811 . + . Feature "WBsf038813" ; TF_ID "WBTranscriptionFactor000101" ; TF_name "LAG-1"

Resolved already - GW

   These two need to be merged - I suggest WBsf019221 be retired as it doesn't have the Interaction objects.
       CHROMOSOME_I TF_binding_site TF_binding_site 10245835 10245841 . + . Feature "WBsf019221" ; TF_ID "WBTranscriptionFactor000101" ; TF_name "LAG-1"
       CHROMOSOME_I TF_binding_site TF_binding_site 10245835 10245841 . + . Feature "WBsf038814" ; TF_ID "WBTranscriptionFactor000101" ; TF_name "LAG-1"

Resolved: WBsf019221 merged into WBsf038814 - GW

   These two need to be merged - no difference between them. The SO_term is wrong - needs to be SO:0000235
       CHROMOSOME_II TF_binding_site TF_binding_site 10950131 10950138 . + . Feature "WBsf019124" ; TF_ID "WBTranscriptionFactor000014" ; TF_name "SKN-1"
       CHROMOSOME_II TF_binding_site TF_binding_site 10950131 10950138 . + . Feature "WBsf019126" ; TF_ID "WBTranscriptionFactor000014" ; TF_name "SKN-1"

Resolved: WBsf019124 merged into WBsf019126 - GW

   Two papers - one says this is a MEX-1 recognition elemant and the other says this is a MEX-3 recognition element - are they both right?
       CHROMOSOME_III binding_site binding_site 4804863 4804877 . - . Feature "WBsf899528"
       CHROMOSOME_III binding_site binding_site 4804863 4804877 . - . Feature "WBsf899543"

Resolved: WBsf899528 merged into WBsf899543 - GW

   Two papers - one says this is a MEX-1 recognition elemant and the other says this is a MEX-3 recognition element - are they both right?
       CHROMOSOME_III binding_site binding_site 4804911 4804928 . - . Feature "WBsf899526"
       CHROMOSOME_III binding_site binding_site 4804911 4804928 . - . Feature "WBsf899542"

Resolved: WBsf899526 merged into WBsf899542 - GW

   These are from the same paper - one says it is "PUF-8 recognition element (PRE-1)" and the other says it is "PUF-8 recognition element (PRE-2)". Are they both right?
       CHROMOSOME_III binding_site binding_site 4805138 4805145 . - . Feature "WBsf899537"
       CHROMOSOME_III binding_site binding_site 4805138 4805145 . - . Feature "WBsf899538"

Resolved: WBsf899537 (PRE-1) was in the wrong position - now correct - GW

   These are from the same paper - one says it is "TF LIN-1 binding site S11 in pJW5" and the other is "TF LIN-1 binding site S20 in pJW5" - looks like an error to me - Gary to redo this.
       CHROMOSOME_III TF_binding_site TF_binding_site 7540351 7540361 . - . Feature "WBsf919592" ; TF_ID "WBTranscriptionFactor000135" ; TF_name "LIN-1"
       CHROMOSOME_III TF_binding_site TF_binding_site 7540351 7540361 . - . Feature "WBsf919594" ; TF_ID "WBTranscriptionFactor000135" ; TF_name "LIN-1"

Resolved: WBsf919594 was in th ewrong position - now correct - GW

   These two need to be merged - I suggest WBsf047654 be retired as it contains less information.
       CHROMOSOME_III regulatory_region misc_feature 7540972 7540992 . - . Feature "WBsf047654"
       CHROMOSOME_III regulatory_region misc_feature 7540972 7540992 . - . Feature "WBsf919589"

Resolved: WBsf047654 merged into WBsf919589 - GW

   These two need to be merged - they are from different papers. I suggest WBsf047505 be retired as it has an incorrect SO_term - needs to be SO:0000235
       CHROMOSOME_IV TF_binding_site TF_binding_site 2306593 2306606 . - . Feature "WBsf047478" ; TF_ID "WBTranscriptionFactor000052" ; TF_name "DAF-19"
       CHROMOSOME_IV TF_binding_site TF_binding_site 2306593 2306606 . - . Feature "WBsf047505" ; TF_ID "WBTranscriptionFactor000052" ; TF_name "DAF-19"

Resolved: WBsf047505 merged into WBsf047478 - GW

   These two need to be merged - they are from different papers. I suggest WBsf019088 be retired as it has an incorrect SO_term - needs to be SO:0000235
       CHROMOSOME_V TF_binding_site TF_binding_site 10671938 10671944 . + . Feature "WBsf019088" ; TF_ID "WBTranscriptionFactor000061" ; TF_name "CEH-22"
       CHROMOSOME_V TF_binding_site TF_binding_site 10671938 10671944 . + . Feature "WBsf919536" ; TF_ID "WBTranscriptionFactor000061" ; TF_name "CEH-22"
   These three need to be merged. They are identical. The SO_term is wrong - needs to be SO:0000235
       CHROMOSOME_V TF_binding_site TF_binding_site 11882353 11882360 . + . Feature "WBsf216760" ; TF_ID "WBTranscriptionFactor000126" ; TF_name "CEH-6"
       CHROMOSOME_V TF_binding_site TF_binding_site 11882353 11882360 . + . Feature "WBsf216762" ; TF_ID "WBTranscriptionFactor000126" ; TF_name "CEH-6"
       CHROMOSOME_V TF_binding_site TF_binding_site 11882353 11882360 . + . Feature "WBsf216764" ; TF_ID "WBTranscriptionFactor000126" ; TF_name "CEH-6"
   These three need to be merged. They are identical. The SO_term is wrong - needs to be SO:0000235
       CHROMOSOME_X TF_binding_site TF_binding_site 4100019 4100026 . - . Feature "WBsf216754" ; TF_ID "WBTranscriptionFactor000126" ; TF_name "CEH-6"
       CHROMOSOME_X TF_binding_site TF_binding_site 4100019 4100026 . - . Feature "WBsf216755" ; TF_ID "WBTranscriptionFactor000126" ; TF_name "CEH-6"
   These two need to be merged. WBsf899549 should be retired as it is incorrect - this is not a TF binding site, it is a regulatory region.
       CHROMOSOME_X regulatory_region misc_feature 5100882 5100888 . + . Feature "WBsf919622"
       CHROMOSOME_X TF_binding_site TF_binding_site 5100882 5100888 . + . Feature "WBsf899549"
   These two need to be merged. WBsf899545 should be retired as it is incorrect - this is not a TF binding site, it is a regulatory region.
       CHROMOSOME_X regulatory_region misc_feature 5100919 5100925 . + . Feature "WBsf919623"
       CHROMOSOME_X TF_binding_site TF_binding_site 5100919 5100925 . + . Feature "WBsf899545"
   These two need to be merged. WBsf899547 should be retired as it is incorrect - this is not a TF binding site, it is a regulatory region.
       CHROMOSOME_X regulatory_region misc_feature 5100970 5100976 . + . Feature "WBsf919625"
       CHROMOSOME_X TF_binding_site TF_binding_site 5100970 5100976 . + . Feature "WBsf899547"
   These two need to be merged. WBsf899548 should be retired as it is incorrect - this is not a TF binding site, it is a regulatory region.
       CHROMOSOME_X regulatory_region misc_feature 5100985 5100991 . + . Feature "WBsf919626"
       CHROMOSOME_X TF_binding_site TF_binding_site 5100985 5100991 . + . Feature "WBsf899548"
   WBsf047482 cites paper WBPaper00025203 - this has now been merged with paper WBPaper00026601 and should really be updated to this in all 11 Features which use it.
   WBsf042312 cites paper WBPaper00025051
   These two Features are otherwise nearly identical and should be merged.
       CHROMOSOME_X TF_binding_site TF_binding_site 8940207 8940220 . - . Feature "WBsf042312" ; TF_ID "WBTranscriptionFactor000052" ; TF_name "DAF-19"
       CHROMOSOME_X TF_binding_site TF_binding_site 8940207 8940220 . - . Feature "WBsf047482" ; TF_ID "WBTranscriptionFactor000052" ; TF_name "DAF-19"
   These two need to be merged. WBsf919641 should be retired as it is incorrect - this is a TF binding site, it is not just a binding_site.
       CHROMOSOME_X binding_site binding_site 12467733 12467737 . + . Feature "WBsf919641"
       CHROMOSOME_X TF_binding_site TF_binding_site 12467733 12467737 . + . Feature "WBsf919607" ; TF_ID "WBTranscriptionFactor000472" ; TF_name "DAF-3"