ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTTGATGCGTGGTGCCGTCGAGGTCCACACGATTCGCAGAGACGTCGCCACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggcagatctccggcctctcacctctccctctctgttcacttggttcctccggttatcacgcggtggttctcgctgcagatcgaagtgtaacatg...

Basic information

species	Zea mays
transcript	GRMZM2G077607_T07
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G077607_T05 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os01g48830.2 (Oryza sativa), 5'ss of exon 1

TTTTGATGCGTGGTGCCGTCGAGGTCCACACGATTCGCAGAGACGTCGCCACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggcagatctccggcctctcacctctccc-tctctgttcacttggttcctccggttatcacgcggtggttctcgctg---cagatcgaagtgtaacatg
|||| ||||||||  || | ||||||||| ||||| ||||| ||| |||  ||||| |  ||||||| || | || ||  |||||||||||||||||||||||| |||||||||||| | | |||    ||| | ||  |||||  ||| | |  | | |  ||      || |     |||   |||||||   |||      
TTTTCATGCGTGGCTCCCTGGAGGTCCACGCGATTGGCAGACACGCCGCGTCGCCGTGCGCCCTGAGACTGAAAGCCCTCCCGGCATTGGACATGATGAGgtagacggcagatctccaggccctcgagcctctcgtccttgttcggttgttcctgcggttcctcgtttcttgctctcttctgtgtcagatcgctatgttg----

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|71434245|gb|DR815295.1|DR815295

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|149020916|gb|EE045759.2|EE045759

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|78079040|gb|DV507452.1|DV507452

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|71437364|gb|DR818414.1|DR818414

EST:     ACGCCGAGTCCCCTGAGGCTCAAAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|78086715|gb|DV515108.1|DV515108

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|71435554|gb|DR816604.1|DR816604

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|148957859|gb|EC904011.2|EC904011

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|148939008|gb|EC883386.2|EC883386

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|149102954|gb|EE288308.2|EE288308

EST:     ACGCCGAGTCCCCTGAGGCTCAAAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|94472405|gb|EB701363.1|EB701363

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|38687646|gb|CK144677.1|CK144677

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGGCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|91874846|gb|EB404803.1|EB404803

EST:     CCGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|148953835|gb|EC899211.2|EC899211

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|76294234|gb|DV033802.1|DV033802

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

EST: gi|149081670|gb|EE170823.2|EE170823

EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG

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: 28

TTTTGATGCGTGGTGCCGTCGAGGTCCACACGATTCGCAGAGACGTCGCCACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGGAGGCGGAGGCGCCGTGCCCCGCAAGCAGGCGTCCAGATCCTCCTACATC

Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 48

Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 47