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Conserved domains on  [gi|2069846241|gb|KAG8100976|]
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hypothetical protein GUJ93_ZPchr0290g2811, partial [Zizania palustris]

Protein Classification

splicing factor U2AF large subunit( domain architecture ID 1002097)

splicing factor U2AF large subunit such as U2AF65, also termed U2AF2, which is the large subunit of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF), which has been implicated in the recruitment of U2 snRNP to pre-mRNAs

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
U2AF_lg super family cl36941
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 93-274 3.66e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


The actual alignment was detected with superfamily member TIGR01642:

Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 42.19  E-value: 3.66e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2069846241  93 RDGSGRQDNYNSR--SSQGSHPRSTPHRYDKYDDRESHDKHGERERFASvgySSSGRRGYYNGRESHSRRDEHERSTSid 170
Cdd:TIGR01642   1 RDEEPDREREKSRgrDRDRSSERPRRRSRDRSRFRDRHRRSRERSYRED---SRPRDRRRYDSRSPRSLRYSSVRRSR-- 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2069846241 171 yTNKRSRHEHSSRNSRTPARSDWDSGRWEWEDTPRREYHDDRSNSRRQHPTPSPMLAAASPDARLVSPWLGGNTPRYTAS 250
Cdd:TIGR01642  76 -DRPRRRSRSVRSIEQHRRRLRDRSPSNQWRKDDKKRSLWDIKPPGYELVTADQAKASQVFSVPGTAPRPAMTDPEKLLA 154

                         170       180
                  ....*....|....*....|....
gi 2069846241 251 PWDHVSPSPAPIRASGSSKGTWKL 274
Cdd:TIGR01642 155 EGSIITPLPVLPYQQQATRQARRL 178
 
Name Accession Description Interval E-value
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 93-274 3.66e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 42.19  E-value: 3.66e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2069846241  93 RDGSGRQDNYNSR--SSQGSHPRSTPHRYDKYDDRESHDKHGERERFASvgySSSGRRGYYNGRESHSRRDEHERSTSid 170
Cdd:TIGR01642   1 RDEEPDREREKSRgrDRDRSSERPRRRSRDRSRFRDRHRRSRERSYRED---SRPRDRRRYDSRSPRSLRYSSVRRSR-- 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2069846241 171 yTNKRSRHEHSSRNSRTPARSDWDSGRWEWEDTPRREYHDDRSNSRRQHPTPSPMLAAASPDARLVSPWLGGNTPRYTAS 250
Cdd:TIGR01642  76 -DRPRRRSRSVRSIEQHRRRLRDRSPSNQWRKDDKKRSLWDIKPPGYELVTADQAKASQVFSVPGTAPRPAMTDPEKLLA 154

                         170       180
                  ....*....|....*....|....
gi 2069846241 251 PWDHVSPSPAPIRASGSSKGTWKL 274
Cdd:TIGR01642 155 EGSIITPLPVLPYQQQATRQARRL 178
 
Name Accession Description Interval E-value
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 93-274 3.66e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 42.19  E-value: 3.66e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2069846241  93 RDGSGRQDNYNSR--SSQGSHPRSTPHRYDKYDDRESHDKHGERERFASvgySSSGRRGYYNGRESHSRRDEHERSTSid 170
Cdd:TIGR01642   1 RDEEPDREREKSRgrDRDRSSERPRRRSRDRSRFRDRHRRSRERSYRED---SRPRDRRRYDSRSPRSLRYSSVRRSR-- 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2069846241 171 yTNKRSRHEHSSRNSRTPARSDWDSGRWEWEDTPRREYHDDRSNSRRQHPTPSPMLAAASPDARLVSPWLGGNTPRYTAS 250
Cdd:TIGR01642  76 -DRPRRRSRSVRSIEQHRRRLRDRSPSNQWRKDDKKRSLWDIKPPGYELVTADQAKASQVFSVPGTAPRPAMTDPEKLLA 154

                         170       180
                  ....*....|....*....|....
gi 2069846241 251 PWDHVSPSPAPIRASGSSKGTWKL 274
Cdd:TIGR01642 155 EGSIITPLPVLPYQQQATRQARRL 178
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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