ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TATTTTATTTTTGCTGCAGAGCTCCTGCATATTCCCCCGGGCTCCAAAGACGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgcctctctacctccactgcctcctcgttgctcttcgttcatttgacgtttccttttcgatctgagaccactctcttgtctgtccttttgcag

Basic information

species	Zea mays
transcript	GRMZM5G850455_T03
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G850455_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os03g07100.1 (Oryza sativa), 5'ss of exon 2

TATTTTATTTTTGCTGCAGAGCTCCTGCATATTCCCCCGGGCTCCAAAGACGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgcctctctacctccactgcctcctcgttgctcttcgttcatttgacgtttccttttcgatctgagaccactctcttgtctgtccttttgcag
                   ||||||| || ||||| |||  ||| |||||||||||| ||||||||||||| ||||||||||||||| |||| ||||||||| ||   ||||  ||   ||   ||   ||||     |||  ||    |   |  |     ||       ||| ||     || |      |  ||   
-------------------AGCTCCTTCACATTCCTCCGAACTCGAAAGACGCCGCCATCTTCAGCCCCGGTGGCGACAAGGGCTCCCCTGCTGCTCCAGgtgagtgagccttacttaatctgttgttccctccagtgtctatgtcttgtctccactgttaatttctctgcagatcatgtagttctacaaattactgacc

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|78076985|gb|DV505419.1|DV505419

EST:     CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAG                         CCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA
genomic: CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

EST: gi|89248995|gb|DY620781.1|DY620781

EST:     AGGGCTCCACTGCCGCTCCAG                         CCAAGGACAACTCGACGGGGACGACCGACTCCCGCGCGCTGCAGGCGACCA
genomic: AGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

EST: gi|71760758|gb|DR958695.1|DR958695

EST:     CGCCGCCGTTTTCAGCCCGGGCGGCGACAAGGGCTCCACTGCCGCTCCAG                         CCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA
genomic: CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

EST: gi|71433515|gb|DR814565.1|DR814565

EST:     CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAG                         CCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA
genomic: CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

EST: gi|86472781|gb|DY239151.1|DY239151

EST:     CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAG                         CCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA
genomic: CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

EST: gi|76288010|gb|DV027578.1|DV027578

EST:     CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAG                         CCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA
genomic: CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

EST: gi|78076984|gb|DV505418.1|DV505418

EST:     CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAG                         CCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA
genomic: CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

EST: gi|67021146|gb|CO449895.1|CO449895

EST:     CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTACAG                         CCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA
genomic: CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

EST: gi|211280058|gb|FL463160.1|FL463160

EST:     CGCCGCCKTCTTCAGTCCCGGCAGCGACAAGGGCTCCACTGCCGCTCCAG                         CCAAGGACAACTCGACGGCGACGACCAACTCCCGCGCGCTGCAGGCGACCA
genomic: CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

EST: gi|28984036|gb|BQ538875.2|BQ538875

EST:     CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAG                         CCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA
genomic: CGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCA

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: 49 (upstream exon), 49 (downstream exon)
Score: 454

TATTTTATTTTTGCTGCAGAGCTCCTGCATATTCCCCCGGGCTCCAAAGACGCCGCCGTCTTCAGCCCCGGCGGCGACAAGGGCTCCACTGCCGCTCCAGgtcagcctgc ... ccttttgcagCCAAGGACAACTCGACGGCGACGACCGACTCCCGCGCGCTGCAGGCGACCACCGGACGCGGCGTCTCCTCCTCGGCGGCGACCGCCGGTGCTGCACTCGC

Block sizes: 40 (upstream exon), 49 (downstream exon)
Score: 14

Block sizes: 29 (upstream exon), 21 (downstream exon)
Score: 1