ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GAATTGTTTGAGGGGCACTATTTCTGCCAAGCTCAAAGACTGGATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgcttgttcctgtcagcagtcaataaaaacatgtattctatttctttggcatttaggcagctttgcccctcatggtccatag

Basic information

species	Zea mays
transcript	GRMZM2G073950_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G073950_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g33080.1 (Oryza sativa), 5'ss of exon 3

GAATTGTTTGAGGGGCACTATTTCTGCCAAGCTCAAAGACTGGATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgctt---------gttcctgtcagcagtcaata---aaaacatgtattctatttctttggc-atttaggcagctttgcccctcatggtccatag
||| ||||||||||||| || ||||| |||||||||||  |||| |||||||  || ||||||||||| ||||| || |||||||| || |||||| | ||| |          ||| |||||| |||| | |   ||   || | |||||||||| | |  ||         |    |  || || || ||||
GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTTCAACGTGCTAAGCCTTATAAAGGGAACCCAACTATAATCAGgtaggcttgcctcattacttgattcttgtcaggagtccacaagcaatgtatatgttctatttctgtagttatccctatgcttcattctttcttgttcgatag

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|211074743|gb|FL419972.1|FL419972

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGTAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|211141684|gb|FL053512.1|FL053512

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|91056600|gb|EB167018.1|EB167018

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|148953399|gb|EE152896.2|EE152896

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|78081735|gb|DV510147.1|DV510147

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|88758160|gb|DY542301.1|DY542301

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|50324199|gb|CO519325.1|CO519325

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|84908437|gb|DW404315.1|DW404315

EST:     GGTTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|60346678|gb|DN213651.1|DN213651

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|148939361|gb|EC883888.2|EC883888

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|78078908|gb|DV507320.1|DV507320

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|29167916|gb|CB411176.1|CB411176

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|71417127|gb|DR803933.1|DR803933

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|211482279|gb|FL401962.1|FL401962

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|94478259|gb|EB707217.1|EB707217

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

EST: gi|78077686|gb|DV506120.1|DV506120

EST:     GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAG                         GATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT
genomic: GATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTT

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: 322

GAATTGTTTGAGGGGCACTATTTCTGCCAAGCTCAAAGACTGGATTTCTTTCGGCGCGCTAAGCCTTACAAAGGCAATCCAACTATTATAAGgtagacatgc ... tggtccatagGATGCAACAGCTTGCAAAGGAGCTGGAAGTTGTCATACCTGTCAGTTTTTTCGAAGAAGCAAACAATGCACATTATAATTCGGTGGCTATTATCGATGCT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 414

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 346