K17822

RIKEN rice full-length cDNA overexpressed Arabidopsis lines

Original: K17822

Phenotypes

Morphological phenotypes

Generation Anatomical entity
/structure development stage		 Phenotypes
T2 seed (PO:0009010)
  • low brightness (PATO:0000327)
    (Seed::Color::dark)

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: K17822

Determination of introduced cDNA(s)

  • J023019E12 - Rice Full-length cDNAs - Original: J023019E12

    full reading [+] show sequence

    Nucleotide sequence: J023019E12 - full reading 
    GAATTTCCTC GAACCCTACC CTAACGCCAT TCCCCACCCC AGCAGCAGCA 
    GCAGCAGACG CCAGTCACCT CGCAATCTCA CGCGGTCACC CGCCGCATGA 
    CCGCGGCTCG ATAGCGCCGC CGCCTCGCCG CCGGGCGTCC TCCTCCCCGG 
    CGCCACCGCG TCGGCCTCCC TCCCCTCCCC TCCCCTCCCC TCCCCGAGCG 
    CCCACCGCGT CGACCTCCAA CCCCCGGGCC CCCACACCGC GTCCTCTTCG 
    AGATCCGCAT CCGCCCCCGC CGCCGCCTCT TGTCCTCTTC CCCGGCCGCC 
    GCTGTTCCTC GATCCTGATT TGCTGGTGGC CGGCCGCCGG CGGAGCAGCC 
    CGGAAGGTCT ACGGCGCGCC GGCGATGTCG CCCAGCACCC TCGCTGCGTC 
    GACCAGTATG AAATGGAGCA GCTGAATCCC CAAGCCTCAC TTTAGGTCTG 
    CCGCTGTTAC AATGAGTCCA TCAAGGAGCA GGAGCAACAG CAGGAGCAGA 
    AGCAGAAGCA GAAGCGGGAG CAAGAGCAAG AGCAAGAGCA AGAGCAGGAG 
    TCGCAGCAGG AGCAGGAGCC GAAGCCGAAG CCCTCGGCGA GAAAGGCTGC 
    GTAGTGAGCG TGTATCACGT CGCAGCCGCA GCCGCAGCCG AGCCGTAGCC 
    CAATTCGTAG AAGAGAACAT CGCGGCCACA GACACTTCGC AGCAGAATGC 
    ACTTCTGAAA CTGTTTGTTG GAACTGCAAG CAGTCTGGCC ACATTGCTAC 
    CGAATGCAAG AATGACGCCC TGTGTCACAC CTGCAGCAAG ACAGGTCATC 
    TGGCACGTGA TTGCCCAAGT TCAGGATCTA GTAAGCTATG CAACAAATGT 
    TTTAAGCCAG GCCACATTGC TGTTGACTGC ACCAACGAGC GGGCTTGCAA 
    CAACTGTCGT CAGCCTGGGC ACATAGCTCG GGAGTGCACG AACGAGCCTG 
    TTTGCAACCT GTGCAATGTC TCTGGGCATC TTGCTCGGAA CTGTCAAAAA 
    ACGACCATTT CTTCAGAGAT ACAGGGCGGC CCTTTCCGTG ACATTACCTG 
    CCGCTTGTGT GGCAAGCCAG GGCACATCAG CCGCAACTGC ATGACAACCA 
    TGATCTGTGG CACCTGCGGT GGGAGGGGTC ATATGTCATA TGAGTGCCCA 
    TCTGCAAGGA TGTTTGATCG TGGGCTCCGC AGGTTCTGAT GACAGCCATC 
    CATACGCACT GCTGGTTCTG ATGCTCGGAA TTTCGCATTG TTCCATTGAT 
    TCTGCTTAGA TAGCTTGCTT GACTATACCG AAACGGTTCT TTTATACCTT 
    TTGCTCTCTG GGAGTTGAGG AATGATTCTG TAGGATGTAT TTGGGTGAAA 
    CTTTTGCTTG TGTTAATCAG GGTGTTGTAG CCTTTCGTGG GGGAACAAAA 
    TGATGTATCT TCCCAAGAGA GACATCCAGA AAAACTGCTT TGGTAGACCA 
    GGCCATATCA AGTATTGTGC ATGACTGTTT GAGCTATTTG ACTCCTCCAA 
    GCTTGCTCCT CCCCACTGAC TGTTGCGTCG AGTTGTCCTC ATTGTTCTGT 
    ATTCTCATAT TATCTTCCTG GAAGAAAAGT TGACGAGTGA GATCAGGATA 
    ACC

    Gene models with high sequence identity

    1. AT1G75560.2 [+] show detail - zinc knuckle (CCHC-type) family protein
      E-value: 4e-54; Score: 209.00

     

    InterPro Scan Digest

    Program Description E-value
    HMMPanther CELLULAR NUCLEIC ACID BINDING PROTEIN 5.6e-34
    HMMPanther ZINC FINGER CCHC DOMAIN CONTAINING PROTEIN 5.6e-34
    FPrintScan PRICHEXTENSN 5.2e-10
    FPrintScan PRICHEXTENSN 5.2e-10
    FPrintScan PRICHEXTENSN 5.2e-10
    FPrintScan PRICHEXTENSN 5.2e-10
    HMMSmart Zinc finger, CCHC-type 0.00013
    HMMSmart Zinc finger, CCHC-type 0.00061
    HMMSmart Zinc finger, CCHC-type 0.0058
    HMMSmart Zinc finger, CCHC-type 0.00052
    HMMSmart Zinc finger, CCHC-type 0.039
    HMMSmart Zinc finger, CCHC-type 0.0012
    HMMSmart Zinc finger, CCHC-type 0.021
    superfamily Retrovirus zinc finger-like domains 1.4e-11
    superfamily Retrovirus zinc finger-like domains 2.2e-08
    superfamily Retrovirus zinc finger-like domains 1.2e-07
    superfamily Retrovirus zinc finger-like domains 0.0001
    ProfileScan Zinc finger, CCHC-type 10.147
    ProfileScan Zinc finger, CCHC-type 9.537
    ProfileScan Zinc finger, CCHC-type 9.405
    ProfileScan Zinc finger, CCHC-type 8.697
    ProfileScan Zinc finger, CCHC-type 9.57
    ProfileScan Zinc finger, CCHC-type 8.977
    HMMPfam Zinc finger, CCHC-type 8.4e-07
    HMMPfam Zinc finger, CCHC-type 5.6e-06
    HMMPfam Zinc finger, CCHC-type 0.00035
    HMMPfam Zinc finger, CCHC-type 6.6e-07
    HMMPfam Zinc finger, CCHC-type 0.0057
    HMMPfam Zinc finger, CCHC-type 4.9e-06
    HMMPfam Zinc finger, CCHC-type 0.0039
    Coil coiled-coil 0
    Gene3D Zinc finger, CCHC retroviral-type 0.00043
    Gene3D Zinc finger, CCHC retroviral-type 2.3e-06

    See the detailed result >

    AT1G75560.2

    Model type
    Protein coding
    Short Description
    zinc knuckle (CCHC-type) family protein
    Computational Description
    zinc knuckle (CCHC-type) family protein; FUNCTIONS IN: zinc ion binding, nucleic acid binding; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCHC-type (InterPro:IPR001878), Zinc finger, CCHC retroviral-type (InterPro:IPR013084); BEST Arabidopsis thaliana protein match is: cold shock domain protein 1 (TAIR:AT4G36020.1); Has 19425 Blast hits to 13089 proteins in 377 species: Archae - 0; Bacteria - 14; Metazoa - 2237; Fungi - 1342; Plants - 858; Viruses - 14254; Other Eukaryotes - 720 (source: NCBI BLink).
    Link
    InterPro Scan - TAIR