ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGGAGGTTCTTGCAATGCACTTCGCAAATTTAGGAGCAAAGCTGATACTATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgcaagatatctgtggcgttgctaaatttttttcccttagtggggaagtcggaatctgaagacctgaaccaagtttgatttacttttcaaag

Basic information

species	Zea mays
transcript	GRMZM2G003692_T07
intron #	4
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|211527525|gb|FL409928.1|FL409928

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGA
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGA

EST: gi|211174932|gb|FL421412.1|FL421412

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAANAACATCCTCA                         GCAAGAATCCAGATAG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAG

EST: gi|37397592|gb|CF636096.1|CF636096

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG

EST: gi|149101270|gb|EE187382.2|EE187382

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG

EST: gi|40337101|gb|CK371171.1|CK371171

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG

EST: gi|211280391|gb|FL376816.1|FL376816

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG

EST: gi|211267130|gb|FL426696.1|FL426696

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG

EST: gi|211126709|gb|FL428259.1|FL428259

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG

EST: gi|211245303|gb|FL400469.1|FL400469

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGATTTGAAATGTTACCCATG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATG

EST: gi|211070635|gb|FL369038.1|FL369038

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACC-ATGGA
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGA

EST: gi|71759817|gb|DR957754.1|DR957754

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG

EST: gi|32919174|gb|CF023986.1|CF023986

EST:     ATCTGCACGTAACAAGGACGCACTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG

EST: gi|71438969|gb|DR820019.1|DR820019

EST:     ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGNNNNNNNNCATCCTCA                         GCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG
genomic: ATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTG

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), 48 (downstream exon)
Score: 208

GGGAGGTTCTTGCAATGCACTTCGCAAATTTAGGAGCAAAGCTGATACTATCTGCACGTAACAAGGACGCGCTTGCGAGAGTGAAAAAAAACATCCTCAgtaagtttgc ... cttttcaaagGCAAGAATCCAGATAGCAGAGTTGAAATGTTACCCATGGATTTATCAGCTGGTGAAGAATCTCTGAAAGAAGTCGTACATGTGGCAGAATCATTTTTTTC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 523

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 431

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 505

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