ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcattattaagttacactttcttgaaatagactttgactcataattaaaattaacatatgatttcccttcacag

Basic information

species	Zea mays
transcript	GRMZM2G082214_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G082214_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g16940.1 (Oryza sativa), 5'ss of exon 3

ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcattattaagttacactttcttgaaatagactttgactcataattaaaattaacatatgatttcccttcacag
|||||||||||||| ||||||||||| ||||| ||||||||||| ||||| || ||||| ||||||||||| ||||||||||||||| |||| ||||||    || ||  ||| | ||||||  ||||  || || ||  ||||||     |||| |||||    |||||||||
ATAATATACCTTGGGAAGCCAGATGGGCCTACTTGCCATACAGGGGCAGAGACTTGTTACTATACTTCAGTCTATGATGCTCTACAAGGTTCGAAGgtatctgttcttgggttgccctttctgtaaatgaacctttacatataatt-----taac-tatgagactccttcacag

upper sequence: GRMZM2G082214_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA16G05140.1 (Glycine max), 5'ss of exon 5

ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactc-------attattaagttacactttcttgaaatagactttgact--------cataattaaaattaacatatgatttcccttcacag
||||||||||| ||||| || ||||| ||||||||||| ||||| |||||||| || |||||||| ||||||| |||     || |      | |||||          ||||| ||  ||   || | |    |  | || ||          ||  ||| | |||    |  | ||  |  | ||||
ATAATATACCTGGGAAAACCTGATGGGCCTACCTGCCACACAGGGGCAGAAACATGCTATTATACATCAGTTTTTGACTTGTTAAAGCAGCAAGAGgtaacttcaatcaattatgaacatattattgccttgctttcatttagagaaagttcagcaatattcagattggtttg-ggttatctattacag

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|18163681|gb|BM333520.1|BM333520

EST:     TACTTCAGTTTATGATGCTCTACAAAGTTCAAAG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA
genomic: TACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA

EST: gi|32849363|gb|CD989044.1|CD989044

EST:     CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAGGTCCAAAG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTCGAAGATACA
genomic: CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA

EST: gi|67018853|gb|CO447602.1|CO447602

EST:     CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTNGAAGATAC
genomic: CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTT-GAAGATAC

EST: gi|78027709|gb|DV496096.1|DV496096

EST:     CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA
genomic: CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA

EST: gi|5108141|gb|AI739854.1|AI739854

EST:     CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA
genomic: CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA

EST: gi|148987058|gb|EE030883.2|EE030883

EST:     CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA
genomic: CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA

EST: gi|20811241|gb|BQ295719.1|BQ295719

EST:     CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACC
genomic: CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA

EST: gi|61118955|gb|DN559916.1|DN559916

EST:     CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAGG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA
genomic: CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA

EST: gi|211366681|gb|FK959526.1|FK959526

EST:     CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA
genomic: CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA

EST: gi|60349630|gb|DN216603.1|DN216603

EST:     CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAG                         CCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA
genomic: CAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACA

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: 83

ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAGgtactcatta ... cccttcacagCCCAATGAAGGCAGGCAGGTTATGACAACCCTATACTCACTTGAAGATACAATTAGTAGACGCCACGAGGAGAAAGTTACTGATGGAGGTGGCAAGCCAT

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 99

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 100