ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTTCTCTTTCTTTCTTACTTCATATTCACAGGTCACATGGAGGGTGATAGTTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgatttaactgcttttatgaacgtttttttattttgttatttcactgtcttttagcttcaaaagtcgtgtagctattctccagttgcatctcat...

Basic information

species	Zea mays
transcript	GRMZM2G042881_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G042881_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os12g03500.2 (Oryza sativa), 5'ss of exon 2

CTTCTCTTTCTTTCTTACTTCATATTCACAGGTCACATGGAGGGTGATAGTTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgatttaactgcttt-tatgaacgtttttttattttgttatttcactgtcttttagcttcaaaagtcgtgt-agctattctccagttgcatctcat
|||||||| || || || || ||||||||||||||||||||||| ||||  |||||||||||||||||||||||||||||  ||||| |||| |||||||||||||| || |   | | ||  ||   |   || ||||   |  ||||     |||| |   |  |||| |      |  ||||      |    |  |||
CTTCTCTTCCTGTCATATTTTATATTCACAGGTCACATGGAGGGGGATAACTCTCAGGCATATGGTCTCTTGTTCCTGGGCATCCTTGCCTTCCTTCCTGgtatgttaatgttcttaccttacattttcacgttattatg--gaaattttttcatcttctcaatgaaaaattttccccaattatttattgatcattttccat

upper sequence: GRMZM2G042881_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g03760.1 (Oryza sativa), 5'ss of exon 2

-------------------------------------------CTTCTCTTTCTTTCTTACTTCATATTCACAGGTCACATGGAGGGTGATAGTTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgattta-actgcttttatgaacgtttttttattttgttatttcactgtcttttagcttcaaaagtcgtgtagctattctccagttgcatctcat
                                           |||||||| || || || || ||||||||||||||||||||||| ||||  |||||||||||||||||||||||||||||  ||||| |||| |||||||||||||| || || |||| |||     || ||||    |   |||||       | |                                            
ATCAATTGCCCTGGCACTATTCCTCCTCCTCCTAGGATGTTCTCTTCTCTTCCTGTCATATTTTATATTCACAGGTCACATGGAGGGGGATAACTCTCAGgcatatggtctcttgttcctgggcatccttgccttccttcctggtatgttaatgtacactggtttaccttacattttcacgtaacgttatcatggaattt--------------------------------------------

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|67014108|gb|CO442857.1|CO442857

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|32800356|gb|CD952592.1|CD952592

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGAATCAAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|6964735|gb|AW433428.1|AW433428

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCGCCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|78180061|gb|DV550434.1|DV550434

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCGCCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|32914829|gb|CF019641.1|CF019641

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|12046434|gb|BF728573.1|BF728573

EST:     TTCTCAGGCATATGGTCTCTTGTTCTTGTGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCGCCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|76013487|gb|DT940657.1|DT940657

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|148939202|gb|EC883667.2|EC883667

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|211370195|gb|FL446709.1|FL446709

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCGCCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|32800710|gb|CD952946.1|CD952946

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|32867057|gb|CF006739.1|CF006739

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|113693747|gb|DW846508.1|DW846508

EST:     CTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: CTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|76013488|gb|DT940658.1|DT940658

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

EST: gi|148939203|gb|EC883668.2|EC883668

EST:     TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTG                         GTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT
genomic: TTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGT

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: 92

CTTCTCTTTCTTTCTTACTTCATATTCACAGGTCACATGGAGGGTGATAGTTCTCAGGCATATGGTCTCTTGTTCCTGGGTTTCCTTTCCTTTCTTCCTGgtatgttgat ... atacttgcagGTTTCTACGAGACTCGAGTTGCTTACTATTCATGGCGGGGAGCACCAGGGTACACTTTTGCATCCATACCAGATTATTAGCCTTTCAGTTTGCGCTGCTG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 111

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 133