ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CAATGGTAACTCTTCGGGAGATAAAGTTGGTGCCCTGTTTTCTGCTACAATTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagcttttattttgatcaataatcttaagttcttaacctaccttctctcgtactaaaacattttagtttctcttgatcattatttggttataatcttcaatttatgaattttttactgactcttggtgaactttaatttag

Basic information

species	Zea mays
transcript	GRMZM2G152757_T04
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G152757_T04 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os12g08280.1 (Oryza sativa), 5'ss of exon 5

CAATGGTAACTCTTCGGGAGATAAAGTTGGTGCCCTGTTTTCTGCTACAATTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagcttttattttgatcaataatcttaagttcttaacctaccttctctcgtactaaaacattttagtttctcttgatcattatttggttataatcttcaatttatgaattttttactgactcttggtgaactttaatttag
 ||||||  ||| ||||||||| |||||||||| || ||||||||||| ||||||||||| ||| |||||||||| ||| | ||||||||| |||||||||||| | ||  |  |||  |  |||   |||     || || ||| ||  |   |   | ||         || | || |||    |||||||||    |||| ||   |                                   
TAATGGTGGCTCCTCGGGAGATCAAGTTGGTGCTCTCTTTTCTGCTACTATTGGTTGTGGAGCTGAAGTAGAGTCTTTACAGGGCTCTCCAGCACAAAAGgttacatctcct--tttatttcata---ttataactttgacttacttttacctatttgagaatggaactaatttt-ttaatctgcttttggttat---tttcacttccag-----------------------------------

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|32842118|gb|CD981799.1|CD981799

EST:     CTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: CTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|71435796|gb|DR816846.1|DR816846

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|93012264|gb|EB637784.1|EB637784

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAA-G                         ATTAGTGTTTGCTCCCTCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|13316247|gb|BG410694.1|BG410694

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|89251071|gb|DY622857.1|DY622857

EST:     GGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCCCCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: GGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|78086723|gb|DV515116.1|DV515116

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|149071539|gb|EE159931.2|EE159931

EST:     GGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: GGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|211359777|gb|FL457484.1|FL457484

EST:     TT-GTTGTGGGGCTGAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         A
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttag-

EST: gi|211359777|gb|FL457484.1|FL457484

EST:     TT-GTTGTGGGGCTGAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         A
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttag-

EST: gi|32841860|gb|CD981541.1|CD981541

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|78124912|gb|DV543296.1|DV543296

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|76016036|gb|DT943206.1|DT943206

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|32841437|gb|CD981118.1|CD981118

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|91053852|gb|EB164270.1|EB164270

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|32842117|gb|CD981798.1|CD981798

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGGTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|32850770|gb|CD990451.1|CD990451

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|13316248|gb|BG410695.1|BG410695

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|32841861|gb|CD981542.1|CD981542

EST:     GGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: GGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|149037768|gb|EE155430.2|EE155430

EST:     TTGGTTGTGGGGCTGAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

EST: gi|32850780|gb|CD990461.1|CD990461

EST:     TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAG                         ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC
genomic: TTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCC

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: 45 (upstream exon), 49 (downstream exon)
Score: 39

CAATGGTAACTCTTCGGGAGATAAAGTTGGTGCCCTGTTTTCTGCTACAATTGGTTGTGGGGCTCAAGTAGAGTCCTTAGATGGCTCTCCACCACAAAAGgttatagctt ... tttaatttagATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG

Block sizes: 47 (upstream exon), 46 (downstream exon)
Score: 169

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 102