ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CACGATTGTTTGGTTGCTTTTGTTCAATTCTTGCTTGTCGTATTTTGTCAATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatgctttctgactcgcaattcaactttgtgtgcatgatgtagttttacatatgcctttccttgcattatctgttacactcactatatttaaga...

Basic information

species	Zea mays
transcript	GRMZM2G443265_T02
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G443265_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os03g17740.1 (Oryza sativa), 5'ss of exon 3

CACGATTGTTTGGTTGCTTTTGTTCAATTCTTGCTTGTCGTATTTTGTCAATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatgctttctgactcgcaattcaactttgtgtgcatgatgtag--ttttaca-tatgcctttccttgcattatctgttacactcactatatttaaga
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CACGATTGTTTGGTTGCTGCTGTTCAATTCCTGTTTGGCATATTTTGTCAATTTGACCAATTTCTTGGTGACTAAGCATACTAGTGCATTGACTCTACAGgtatggcatggagtctcactctttaattcatctcttgttactggagtagaatttagcagtgttcaagaaattgttttagatttcaaatttgttgctgaca---

upper sequence: GRMZM2G443265_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA08G45110.1 (Glycine max), 5'ss of exon 3

CACGATTGTTTGGTTGCTTTTGTTCAATTCTTGCTTGTCGTATTTTGTCAATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatgctttctgactcgcaattcaactttgtgtgcatg-atgtagttttacatatgcctttccttgcattatctgttacactcactatatttaaga------------------------------------------------------------------------
 |  ||| | ||||||||| |||||||||||   ||| | || ||||||||||||||||||||||| || || ||||| || |||||| | || || ||||||   |   || ||    || | ||| || ||   |   ||      || ||||  ||  ||     |     ||| | |   || ||   |  || | |                                                                        
AAGTATTTTGTGGTTGCTTATGTTCAATTCTGCATTGGCATACTTTGTCAATTTGACCAATTTCTTAGTCACAAAGCACACCAGTGCATTAACACTTCAGgtaatcatccctctccctttccccattgaaattctaggaaatttgcaaagcttta-gtacaccaagaatgatcatatgtatggaacccaaatttcttcatattcatagctacttattttcagtaacatctaaccatgcatttttttgttaataagtcataattactgtgccag

upper sequence: GRMZM2G443265_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA18G07560.1 (Glycine max), 5'ss of exon 3

CACGATTGTTTGGTTGCTTTTGTTCAATTCTTGCTTGTCGTATTTTGTCAATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatgctttctgactcgcaattcaactt-tgtgtgcatgatgtagttttacatatgcctttccttgcattatctgttacactcactatatttaaga
 |  ||| | ||||||||| |||||||||||   ||| | |||||||||||||||||||||||||| || || ||||| || || ||| | || || ||||||   |   || |     |||| ||| || || | ||    |     ||  |||  ||  ||     |     ||| | |   |   |   |  |||| |
AAGCATTTTGTGGTTGCTTATGTTCAATTCTGCATTGGCATATTTTGTCAATTTGACCAATTTCTTAGTCACAAAGCACACCAGCGCATTAACACTTCAGgtaatcatccctcttcctttcgccattgaaattatatgaatttttcaaagcatta-gtacaccaagaatgatcatatgtatggaataaaaatttcttaata

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|76283895|gb|DV023463.1|DV023463

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|91869935|gb|EB400616.1|EB400616

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTCCAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|29545018|gb|CB605196.1|CB605196

EST:     ATTTGACCGATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|60344145|gb|DN211118.1|DN211118

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|60348242|gb|DN215215.1|DN215215

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|148969074|gb|EE019796.2|EE019796

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|148966132|gb|EE017075.2|EE017075

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GGTCTCGGAAATGCAAAGG-TGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|76280358|gb|DV019926.1|DV019926

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|101384119|gb|EB814114.1|EB814114

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|86466583|gb|DY232953.1|DY232953

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

EST: gi|149088241|gb|EE287350.2|EE287350

EST:     ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAG                         GTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA
genomic: ATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATA

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), 46 (downstream exon)
Score: 97

CACGATTGTTTGGTTGCTTTTGTTCAATTCTTGCTTGTCGTATTTTGTCAATTTGACCAATTTCTTGGTGACCAAGCATACTAGTGCACTGACTCTACAGgtaccaaatg ... gccccttcagGTTCTCGGAAATGCAAAGGGTGCGGTGGCAGTTGTCGTCTCGATTATGATATTCAGGAATCCCGTGTCCATAACAGGAATGCTCGGTTATACTCTCACAG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 283

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 338