ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGCTTTTTCCCCCAGAATGTGTTGCCAACCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgttatgtgcatagcattacactataattgatctggactctcgaattgagattgaaagtgtaaataaggggaaaaaaggttgattgaagtaactaatgatcctgtgttttccag

Basic information

species	Zea mays
transcript	GRMZM2G160569_T02
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G160569_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os07g44070.1 (Oryza sativa), 5'ss of exon 9

TGCTTTTTCCCCCAGAATGTGTTGCCAACCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgttatgtgcatagcattacactataattgatctggactctcgaattgagattgaaagtgtaaataaggggaaaaaaggttgattgaagtaactaatgatcctgtgttttccag
||||||||||||||||||||| |||||| ||| | ||| ||||||||| ||||||||||||| ||||| |||||||||||| |||| |  ||  | ||||       | |  | | ||        || |  |     || | ||||  |      |||| ||| |  ||  | | |  | ||  | | ||||||||
TGCTTTTTCCCCCAGAATGTGGTGCCAAACATTCAAACTCCAACTTTTATTTTGAACACTGCTTATGATGTGTGGCAGgtatttgtcagttgttttgcat------gttaacggtatga-----taaagttggtccacaaatataaactat-----aaaatgttcaaggacatgatt--ttattttatattttccag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|148953387|gb|EE152881.2|EE152881

EST:     ACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: ACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|91056470|gb|EB166888.1|EB166888

EST:     ATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: ATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|211266712|gb|FL294975.1|FL294975

EST:     CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|101383816|gb|EB813963.1|EB813963

EST:     GAACACTGCCTATGACGTGTGGCAG                         GTTCAACAAAGTGTGGCCCCTAGAACAGGTGATCCCCAAGGTCTTTGGTCA
genomic: GAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|67018103|gb|CO446852.1|CO446852

EST:     CCATTCGAACTCCAACTTTTGTTTTGAACACTGCCTACGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|91051274|gb|EB161692.1|EB161692

EST:     TTGTTTTGAACACCTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: TTGTTTTGAACA-CTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|31356908|gb|CD441265.1|CD441265

EST:     CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|78025651|gb|DV494038.1|DV494038

EST:     CTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: CTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|149009226|gb|EE153857.2|EE153857

EST:     CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|149101141|gb|EE187249.2|EE187249

EST:     CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|76932739|gb|DV173141.1|DV173141

EST:     CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|32837541|gb|CD977219.1|CD977219

EST:     CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: CCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

EST: gi|60401537|gb|DN234344.1|DN234344

EST:     CTGCCTATGACGTGTGGCAG                         CTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA
genomic: CTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCA

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 221

TGCTTTTTCCCCCAGAATGTGTTGCCAACCATCCGAACCCCAACTTTTGTTTTGAACACTGCCTATGACGTGTGGCAGgtacttgtta ... tgttttccagCTTCAACAAAGTGTGGCCCCTAGAACAGCTGATCCCCAAGGTCTTTGGTCAAAGTGTAGGACGAACCATGCCTTCTGTAATAGCAACCAGCTCCAGTTTT

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 257

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 192