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  3. RAFL05-21-F01

RAFL05-21-F01

RIKEN Arabidopsis Full-length cDNAs

Resource: (pda01369)

full reading [+] show sequence

Nucleotide sequence: RAFL05-21-F01 - full reading 
GCACACAAAG TTTGCTTGCC TTCTGGGCTT CACGATTCTC ACGACATCTG 
TTTATCTTCT CCGATTTCCA CGTCCATGGA TCTCAGTCAA TGTTCCTTAA 
TCTCTCTTTT CGATTAGTCC AATCTCCACT AATCTCTGAC CTCAGATCGC 
TTCCGACGCC GCTGAACTGT GTCCGTCTTG ATCTGTGTTT AGGAGAAAGC 
TTCTAGGGTT TTTGTTTTGG TTGCTGAGTA GAATTTGTTG GATCTGAAAC 
GGAAATCAAA ATGGGCTTTT TCAGTACGAT ACTAGGATTT TGTGGATTTG 
GAGTTGGGAT TTCATTGGGA CTTGTTATTG GTTACGTTCT CTTCGTCTAC 
TTGCTCCCCA ACGACGTCAA GGATCCTGAA ATTCGTTCAA TAGCTGACCA 
AGATCCCAAA GCTATGCTAC GGATGCTTCC AGAGATACCT CTATGGGTCA 
AAAATCCGGA TTTCGATCGT GTTGACTGGA TAAACAGATT TCTCGAGTAC 
ATGTGGCCTT ATCTCGACAA GGCCATATGT AAGACTGCAA AGAATATAGC 
AAAACCGATC ATTGAGGAGC AGATACCAAA GTACAAGATT GACTCTGTTG 
AATTTGAAAC GCTTACTCTA GGCTCTTTAC CCCCTACATT TCAAGGGATG 
AAAGTTTATC TCACGGATGA GAAAGAGTTG ATTATGGAAC CATGCTTGAA 
ATGGGCCGCA AATCCCAATA TCTTGGTTGC CATCAAGGCA TTTGGGTTGA 
AGGCAACAGT TCAGGTGGTC GATCTGCAAG TTTTTGCTCA GCCTCGTATC 
ACTCTCAAGC CATTAGTTCC AAGTTTCCCT TGTTTTGCCA ATATCTATGT 
GTCTCTTATG GAGAAGCCAC ATGTTGATTT TGGACTGAAG CTTGGTGGAG 
CAGATCTTAT GTCAATCCCT GGCCTCTACA GATTTGTTCA GGAGCAAATC 
AAGGATCAAG TTGCGAACAT GTATCTCTGG CCTAAGACCC TTGTAGTTCC 
AATCCTTGAC CCTGCAAAGG CGTTCAGAAG GCCTGTTGGA ATTGTCCATG 
TGAAAGTTGT GAGGGCTGTG GGGCTGAGGA AAAAAGATCT GATGGGCGGG 
GCAGATCCAT TCGTGAAAAT CAAGCTCTCT GAAGATAAGA TTCCTTCTAA 
GAAGACAACA GTTAAACACA AGAATTTGAA TCCTGAATGG AATGAGGAGT 
TCAAATTCTC GGTCAGAGAT CCCCAGACTC AGGTTCTAGA GTTCAGTGTG 
TATGACTGGG AACAGGTTGG GAATCCCGAG AAGATGGGTA TGAATGTATT 
AGCTCTGAAA GAAATGGTGC CTGACGAACA TAAAGCATTC ACCTTGGAAC 
TGCGTAAGAC TCTGGACGGC GGTGAAGATG GGCAGCCTCC TGACAAGTAT 
AGGGGGAAGC TGGAGGTTGA ACTCTTGTAT AAGCCATTCA CGGAGGAAGA 
AATGCCCAAA GGCTTTGAAG AAACGCAAGC CGTGCAGAAA GCTCCAGAAG 
GCACACCGGC TGCTGGAGGA ATGCTTGTGG TAATAGTGCA TTCGGCTGAG 
GATGTTGAAG GAAAGCACCA TACCAATCCT TACGTGCGCA TCTATTTCAA 
AGGAGAAGAG AGAAAAACAA AGCACGTGAA GAAGAACAGA GACCCAAGGT 
GGAATGAGGA GTTCACCTTT ATGCTCGAGG AGCCTCCAGT CCGTGAGAAG 
CTGCACGTTG AAGTGCTGAG CACCTCTTCC AGGATAGGTC TATTGCATCC 
CAAGGAAACA CTGGGGTATG TGGATATTCC AGTGGTGGAC GTGGTGAACA 
ACAAAAGGAT GAATCAGAAG TTTCACCTTA TTGATTCTAA GAACGGAAAG 
ATCCAAATCG AGCTCGAGTG GCGAACTGCC TCTTGATTTC TGAGTTGATT 
CGAGAACAAA CAAAGAGATA ATTGGTTTGA TGTTGTTAAG AACTATGTGT 
TGTTGTACAA AATGGGCTTT AACTCTTAAA AACCAACATT CAGATTTGCC 
AAAAAAAAAA AAAAAA

Gene models with high sequence identity

  1. AT2G20990.1 [+] show detail - synaptotagmin A
    E-value: 0; Score: 99.90

 

InterPro Scan Digest

Program Description E-value
HMMPanther CALCIUM LIPID BINDING PROTEIN 2.3e-233
HMMPanther CALCIUM-DEPENDENT LIPID-BINDING PROTEIN (CALB 2.3e-233
ProfileScan C2 membrane targeting protein 16.465
ProfileScan C2 membrane targeting protein 12.099
ProfileScan Transcription regulator SCAN 8.526
Gene3D no description 8.1e-26
Gene3D no description 7.6e-22
HMMPfam C2 calcium-dependent membrane targeting 3.3e-23
HMMPfam C2 calcium-dependent membrane targeting 1.9e-13
superfamily C2 calcium/lipid-binding domain, CaLB 4.3e-32
superfamily C2 calcium/lipid-binding domain, CaLB 1.2e-24
FPrintScan C2 region 3e-07
FPrintScan C2 region 3e-07
FPrintScan C2 region 3e-07
HMMSmart C2 calcium-dependent membrane targeting 2.5e-21
HMMSmart C2 calcium-dependent membrane targeting 9.1e-14

See the detailed result >

AT2G20990.1

Model type
Protein coding
Short Description
synaptotagmin A
Curator Summary
Encodes a plasma membrane localized protein with similarity to synaptotagmins, a class of membrane trafficking proteins. SYT1 is expressed in all tissues. Loss of function mutations show hypersensitivity to NaCl and electrolyte leakage from the plasma membrane. SYT1 also affects calcium dependent freezing tolerance. SYT1 probably plays a role in membrane repair such as membrane resealing after freezing induced damage. Regulates endocytosis endosome recycling at the plasma membrane, but not membrane traffic along the secretory pathway.
Computational Description
synaptotagmin A (SYTA); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: in 7 processes; LOCATED IN: endosome, plasma membrane, vacuole, membrane; EXPRESSED IN: whole plant, guard cell, cultured cell, callus, leaf; EXPRESSED DURING: seedling growth; CONTAINS InterPro DOMAIN/s: C2 membrane targeting protein (InterPro:IPR018029), C2 calcium/lipid-binding domain, CaLB (InterPro:IPR008973), C2 region (InterPro:IPR020477), C2 calcium-dependent membrane targeting (InterPro:IPR000008); BEST Arabidopsis thaliana protein match is: Calcium-dependent lipid-binding (CaLB domain) family protein (TAIR:AT1G20080.1); Has 7068 Blast hits to 5182 proteins in 270 species: Archae - 0; Bacteria - 0; Metazoa - 4491; Fungi - 774; Plants - 1307; Viruses - 0; Other Eukaryotes - 496 (source: NCBI BLink).
Link
InterPro Scan - TAIR

Mutant lines with RAFL05-21-F01 introduced

  • F00844 - Specific phenotypes were NOT observed.
  • F08848 - seed::increased size
  • F11021 - Specific phenotypes were NOT observed.
  • F16448 - Specific phenotypes were NOT observed.
  • F16605 - seed::increased size / seed::increased length
  • F17727 - Specific phenotypes were NOT observed.
  • F28840 - Specific phenotypes were NOT observed.
  • F29229 - Specific phenotypes were NOT observed.

Mutant lines with disrupted or induced

9 mutant lines found