ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGTGCCCGAGCGTTCTCGTGCGGCAAGTGGGCGCCGCCGCCGGACTACGCCAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccctttctcttcccttcttgctgtgcgaaacccagcaccatccgaaccctaacttgagctatctggctatttgcatccggatctgatctaattaccaagcgtgtacatacatactactaacttcgattttttttttgggaaaaatattggaacatccgtgtcctttaccgggttcccccctatag

Basic information

species	Zea mays
transcript	GRMZM5G823629_T02
intron #	1
splice site	5'
intron type	U2

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|78081629|gb|DV510041.1|DV510041

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|78079408|gb|DV507820.1|DV507820

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|211496862|gb|FL065359.1|FL065359

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|76280570|gb|DV020138.1|DV020138

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|211496860|gb|FL065357.1|FL065357

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|71445237|gb|DR826287.1|DR826287

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|76281274|gb|DV020842.1|DV020842

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|78111635|gb|DV530032.1|DV530032

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|50328555|gb|CO523681.1|CO523681

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|211496859|gb|FL065356.1|FL065356

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|211496857|gb|FL065354.1|FL065354

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|211496858|gb|FL065355.1|FL065355

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

EST: gi|91051408|gb|EB161826.1|EB161826

EST:     CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCA                         AAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC
genomic: CAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGC

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: 45 (upstream exon), 46 (downstream exon)
Score: 29

GGTGCCCGAGCGTTCTCGTGCGGCAAGTGGGCGCCGCCGCCGGACTACGCCAGGTGCCCAGTTCCTCGTCGGGTCCTTCGTCGACGACGAGCACCCACCAgttatgccct ... ccccctatagAAAATTCGAGTATTAGACTCTACATGTCAAGAAAGTATGGCGCCAGGAAGCAAGGCGGAGCGGAAAGCAGCACTAGATGCTGGCGCATGGATGTTCAATG

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 40

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 22

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 70

Data associated with selected splice site

Sequence

Basic information

Mapped EST sequences

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

RNA-Seq data