ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCCCCGCCTCCCGGGCTCGGCAGCGGCGGCTATCACAACCAGCAGCAGCCGTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgaggtcttctcggtcgctgagattgtttgctcctgctctgctgcttagcttagctgtgcagtggggaaaagctgcagctgggggcgcggctgc...

Basic information

species	Zea mays
transcript	GRMZM2G022453_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G022453_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os05g49020.1 (Oryza sativa), 5'ss of exon 1

-GCCCCGCCTCCCGGGCTCGGCAGCGGCGGCTATCACAACCAGCAGCAGCCGTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgaggtcttctcggtcgctgagattgtttgctcctgctctgctgcttagcttagctgtgcagtggggaaaagctgcagctgggggcgcggctgc-----
 || ||  |  | | |  ||||  |  |  | | ||| | ||||||||||| |||||||| |||||| | |||||||| ||||| |||||| |||  |||||||||    |    ||||   | ||||       ||||     | |||||||| | |||| | ||  | ||  | | |  | |        |||   ||      
GGCGCCAGCGGCGGCGG-CGGCCACTACCACCACCACCATCAGCAGCAGCCCTACGCGCCGGCGGAGCCCTACTACGCGCAGGGCTACCAGACCGGGCCAGgtatggccggtctctctca--cactga---ctcctgctttgcttgtgctgctttgattaggtttggtggggaaatatggggaattgcaaatcgcaattggaaatt

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|5761881|gb|AI966854.1|AI966854

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211510117|gb|FL332873.1|FL332873

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211367717|gb|FL344724.1|FL344724

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211222593|gb|FL333442.1|FL333442

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACC
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACC

EST: gi|211106942|gb|FL338699.1|FL338699

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211361992|gb|FL325584.1|FL325584

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGSTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211021435|gb|FL345703.1|FL345703

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|89248089|gb|DY619875.1|DY619875

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211349709|gb|FL339346.1|FL339346

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211317797|gb|FL309524.1|FL309524

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211325177|gb|FL364046.1|FL364046

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|60397723|gb|DN230539.1|DN230539

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|89248090|gb|DY619876.1|DY619876

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211269693|gb|FL318255.1|FL318255

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|149085931|gb|EE175459.2|EE175459

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|161589855|gb|EY962642.1|EY962642

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTG
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTG

EST: gi|211329266|gb|FL352876.1|FL352876

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211171825|gb|FL323733.1|FL323733

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211391286|gb|FL329725.1|FL329725

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|211432570|gb|FL331491.1|FL331491

EST:     GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTTCCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: GTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

EST: gi|110519086|gb|EE023673.1|EE023673

EST:     ACGTACTACGCCCAGGGGTACCAGGCCGTACCAG                         GCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT
genomic: ACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCAT

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: 44 (upstream exon), 48 (downstream exon)
Score: 55

GCCCCGCCTCCCGGGCTCGGCAGCGGCGGCTATCACAACCAGCAGCAGCCGTACGCGCCTGCGGAGACGTACTACGCCCAGGGGTACCAGGCCGTACCAGgtatgctgag ... ggttccttagGCTATGGTCCTGTTGCTGAAGGAAGACCTGTGAGAATGAGGCGTCTCCCATGTTGTGGCCTCGGCTTAGGCTGGTGTCT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 88

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 82