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  3. RAFL05-04-H19

RAFL05-04-H19

RIKEN Arabidopsis Full-length cDNAs

Resource: (pda00686)

full reading [+] show sequence

Nucleotide sequence: RAFL05-04-H19 - full reading 
CACGAGATTT TTTATTTTAA TATCACGCTC GAATATACAA TTCGGAATGT 
GCAGATGTTT TTTTTGAAGG CAATTTAGAA AAATAGACAA AAATCGAACA 
AACATATATA GAAATAGAGA TCTAAATAAA AACATTTATT TTATTTCCTC 
TTGGAAACAA GGAAAAAATG AATTGGGGTG GGTGACGTGG CAGTCATACC 
CTTGCCACAC CCTTCCTATA CGCATATAAA CAGCAGCTGC GAGGAGAGAG 
AGATTTCAGA GTATTTTCTA GGGTTTCGTT TTTTTAAAGA TTTAGAGAAA 
AAAGTGAGTT ATTAAGAGAT TCCAATCAAA ATGAGCGGAG ACAACGGCGG 
TGGTGAGAGG CGCAAAGGCT CCGTCAAGTG GTTTGATACC CAGAAGGGTT 
TCGGCTTCAT CACTCCTGAC GACGGTGGCG ACGATCTCTT CGTTCACCAG 
TCCTCCATCA GATCTGAGGG TTTCCGTAGC CTCGCTGCCG AAGAAGCCGT 
AGAGTTCGAG GTTGAGATCG ACAACAACAA CCGTCCCAAG GCCATCGATG 
TTTCTGGACC CGACGGCGCT CCCGTCCAAG GAAACAGCGG TGGTGGTTCA 
TCTGGCGGAC GCGGCGGTTT CGGTGGAGGA AGAGGAGGTG GACGCGGATC 
TGGAGGTGGA TACGGCGGTG GCGGTGGTGG ATACGGAGGA AGAGGAGGTG 
GTGGTCGAGG AGGCAGCGAC TGCTACAAGT GTGGTGAGCC CGGTCACATG 
GCGAGAGACT GTTCTGAAGG CGGTGGAGGT TACGGAGGAG GCGGCGGTGG 
CTACGGAGGT GGAGGCGGAT ACGGCGGAGG AGGTGGTGGT TACGGAGGTG 
GTGGCCGTGG AGGTGGTGGC GGCGGGGGAA GCTGCTACAG CTGTGGCGAG 
TCGGGACATT TCGCCAGGGA TTGCACCAGC GGTGGACGTT AAAACCAACG 
CCGGTTACGC GGTGGAGAAG AGTGAGTTGG TTATCTCACA AGTGATCGGT 
TCTTTCTCCC GCCGCCTTCT ATCTCTCTAT TATCCACTTT TTGCTTATTA 
TGATGGATCT CTATCTTTGT TAGTTGGTTT TTTCTTGAT

Gene models with high sequence identity

  1. AT4G38680.1 [+] show detail - glycine rich protein 2
    E-value: 0; Score: 99.91

 

InterPro Scan Digest

Program Description E-value
FPrintScan Cold-shock protein, DNA-binding 7.5e-11
FPrintScan Cold-shock protein, DNA-binding 7.5e-11
FPrintScan Cold-shock protein, DNA-binding 7.5e-11
PatternScan Cold-shock conserved site 0
HMMSmart Cold shock protein 8.9e-23
HMMSmart Zinc finger, CCHC-type 1.3e-05
HMMSmart Zinc finger, CCHC-type 3.4e-05
HMMPanther GLYCINE-RICH PROTEIN 2 2e-82
HMMPanther ZINC FINGER CCHC DOMAIN CONTAINING PROTEIN 2e-82
Gene3D Nucleic acid-binding, OB-fold 1.6e-13
HMMPfam Cold-shock protein, DNA-binding 2.4e-26
HMMPfam Zinc finger, CCHC-type 2.5e-08
HMMPfam Zinc finger, CCHC-type 1.2e-07
ProfileScan Zinc finger, CCHC-type 11.499
ProfileScan Zinc finger, CCHC-type 10.938
superfamily Nucleic acid-binding, OB-fold-like 6.7e-21
superfamily Retrovirus zinc finger-like domains 2.1e-10

See the detailed result >

AT4G38680.1

Model type
Protein coding
Short Description
glycine rich protein 2
Curator Summary
Encodes a glycine-rich protein that binds nucleic acids and promotes DNA melting. Its transcript and protein levels are up-regulated in response to cold treatment with protein levels peaking earlier in shoots (~10-14 days) than in roots (~21 days). It is normally expressed in meristematic regions and developing tissues where cell division occurs. RNAi and antisense lines with lower levels of CSP2/GRP2 transcripts flower earlier than wild type plants and have some defects in anther and seed development.
Computational Description
glycine rich protein 2 (GRP2); FUNCTIONS IN: double-stranded DNA binding, mRNA binding, single-stranded DNA binding, nucleic acid binding; INVOLVED IN: stamen development, vegetative to reproductive phase transition of meristem, response to cold, seed development, DNA duplex unwinding; LOCATED IN: nucleolus, nucleus, plasma membrane, cytoplasm; EXPRESSED IN: 37 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Nucleic acid-binding, OB-fold-like (InterPro:IPR016027), Nucleic acid-binding, OB-fold (InterPro:IPR012340), Cold shock protein (InterPro:IPR011129), Cold-shock conserved site (InterPro:IPR019844), Zinc finger, CCHC-type (InterPro:IPR001878), Cold-shock protein, DNA-binding (InterPro:IPR002059); BEST Arabidopsis thaliana protein match is: glycine-rich protein 2B (TAIR:AT2G21060.1); Has 150401 Blast hits to 55289 proteins in 3379 species: Archae - 285; Bacteria - 51625; Metazoa - 48133; Fungi - 9113; Plants - 13783; Viruses - 1771; Other Eukaryotes - 25691 (source: NCBI BLink).
Link
InterPro Scan - TAIR

Mutant lines with RAFL05-04-H19 introduced

  • F12101 - Specific phenotypes were NOT observed.
  • F30415 - Specific phenotypes were NOT observed.

Mutant lines with disrupted or induced

6 mutant lines found