ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CGCTCAACTTCGCCGTGGTCGACGACGGCATCTTCCGCTCCGGATTCCCAGGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtctctttcgctctctcccatgccggcgccgtctctcgaatcactgtgctcgtgcggcgctctgaaccgttccagcgcgccag

Basic information

species	Zea mays
transcript	GRMZM2G070315_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G070315_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os06g10650.1 (Oryza sativa), 5'ss of exon 1

CGCTCAACTTCGCCGTGGTCGACGACGGCATCTTCCGCTCCGGATTCCCAGGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaag---cgtctctttcgctctctcccatgccggcg---ccgtctctcgaatcactgtgctcg--tgcggcgctctgaaccgttccagcgcgccag------------------------------------
|||||||||||||  |||||||||||||||||||||||||||| ||||| | | ||||||||||||||||||||||||| |||||||||||||||||||||| ||     | ||| || ||||||| |  ||  ||     ||||| | | |||   | | | |  || |  |   ||   ||     | | | |                                      
CGCTCAACTTCGCGATGGTCGACGACGGCATCTTCCGCTCCGGCTTCCCCGCGGCCGCCAACTTCCGGTTCCTCAAGTCGCTCAACCTCCGCTCCATCGTgtgaggaatttttctctctctctctctctagctagctacctcgtctgttgcatctaggggttgggttgggttgggttgcttcgcgggtgtgtggcgcgtgttcgtgtggttctgacgagggtgacgtcatcag

upper sequence: GRMZM2G070315_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv12s0059g01400.t01 (Vitis vinifera), 5'ss of exon 1

CGCTCAACTTCGCCGTGGTCGACGACGGCATCTTCCGCTCCGGATTCCCAGGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtctctttcgctctctcccatgccggcgccgtctctcgaatc--actg-----tgctcgtgcggcgctctgaaccgttccagcgcgccag-------------------
| |||||||||||| |||||||  |||||||||||||||| || || || |  || |||||||||   ||| |  |  ||||    ||||| || ||| ||| ||  |   |||    |  |       ||     | ||||    |   ||||     || |  |   | | | ||      |    |                          
CTCTCAACTTCGCCATGGTCGATAACGGCATCTTCCGCTCAGGTTTTCCCGACACAGCCAACTTCGCCTTCTTGCAAACCCTAGGTCTCCGTTCAATCATgtgagtctgaatttgagccctttttgcttcgttttaggctctgatcttgaactgagaaatgttaatttagggttttggttttctttttcttttttttggttgaattttcatttag

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|211207266|gb|FK949980.1|FK949980

EST:     GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|149028367|gb|EE286122.2|EE286122

EST:     GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|148939874|gb|EC884586.2|EC884586

EST:     GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|88755665|gb|DY539806.1|DY539806

EST:     GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|211209829|gb|FK949987.1|FK949987

EST:     GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|148937447|gb|EC881628.2|EC881628

EST:     GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|211209830|gb|FK949988.1|FK949988

EST:     GGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCC-GCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|149028366|gb|EE154635.2|EE154635

EST:     CCAACTTCCGGTTCCTCAAGTCCCTCAACTTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: CCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|149083277|gb|EE172563.2|EE172563

EST:     GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|211207269|gb|FK949983.1|FK949983

EST:     GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

EST: gi|76290784|gb|DV030352.1|DV030352

EST:     GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGT                         GTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA
genomic: GGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAA

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 3 RNA-Seq libraries.

Block sizes: 42 (upstream exon), 44 (downstream exon)
Score: 46

CGCTCAACTTCGCCGTGGTCGACGACGGCATCTTCCGCTCCGGATTCCCAGGGACCGCCAACTTCCGGTTCCTCAAGTCCCTCAACCTCCGCTCCATCGTgtaagcgtct ... agcgcgccagGTACCTGTGCCCGGAGCCGTACCCGGGGACGAACACGGAGTTCCTAGAAAAGAATGGGATCAGGCTCCACCAGTTCGGAATCGAGGGGCGCAAG

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 44