ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGGAATGATCTTGCTACTACGACTGGCCAAGAGCTTTTGGACATGGTTGACAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatctaatctctgttcaatcttcttcctggaaaaagtgagttactgaaagtgtgtcgtgataactgtgttgctgaaatttgtgttgtag

Basic information

species	Zea mays
transcript	GRMZM2G086934_T01
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G086934_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os03g11540.1 (Oryza sativa), 5'ss of exon 7

TGGAATGATCTTGCTACTACGACTGGCCAAGAGCTTTTGGACATGGTTGACAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatctaatctctgttcaatcttcttcctggaaaaagtgagttactgaaagtgtgtcgtgataactgtgttgctgaaatttgtgttgtag
|||||||||||||| || || ||||| || ||||| ||||||||||| |||  | ||||| |  |||||||||||||||||||||||||||||||||||||||  |       | | |   |   || | |   | |  |  ||| ||   ||   ||||   | | | |  |  | ||  ||| |     |   
TGGAATGATCTTGCCACAACTACTGGTCAGGAGCTCTTGGACATGGTAGACTCTGCGCCTATCATTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtatgtt------tgtgttaccttcctgcatgtggtaggatctgaattggcgattatgtgc--taacagcattactactataatgtcgacag---

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|32944972|gb|CF049791.1|CF049791

EST:     CAGTTCTCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAG                         GCGTGTCTCTTTCAACTATTGGCAGAAGT
genomic: CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatc ... tgtgttgtagGCGTATCTCTTTCAACTATTGGCAGAAGT

EST: gi|67023291|gb|CO452040.1|CO452040

EST:     CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAG                         GTGTGTCTCTTTCAACTATTGGCAGAAGTACTCTCGAGATTAATCCTGACC
genomic: CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatc ... tgtgttgtagGCGTATCTCTTTCAACTATTGGCAGAAGTACTCTCGAGATTAATCCTGACC

EST: gi|61118644|gb|DN559605.1|DN559605

EST:     AGTTCGCCTGTTGTTGCGATAAAGAGCATAAGGGGTATCTGACTTCCAAG                         GCGTGTCTCTT
genomic: AGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAG-TATCTGACTTCCAAGgtacatcatc ... tgtgttgtagGCGTATCTCTT

EST: gi|32825102|gb|CD964824.1|CD964824

EST:     CAGTTCTCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAG                         GCGTGTCTCTTTCAACTATTGGCAGAAGTACTCTCGAGATTA
genomic: CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatc ... tgtgttgtagGCGTATCTCTTTCAACTATTGGCAGAAGTACTCTCGAGATTA

EST: gi|32943914|gb|CF048733.1|CF048733

EST:     CAGTTCTCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAG                         GCGTGTCTCTTTCAACTATTGGCAGAAGT
genomic: CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatc ... tgtgttgtagGCGTATCTCTTTCAACTATTGGCAGAAGT

EST: gi|211282783|gb|FL192974.1|FL192974

EST:     CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAG                         GCGTGTCTCTTTCAACTATTGGCAGAAGTACTCTCGAGATTAATCCTGACC
genomic: CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatc ... tgtgttgtagGCGTATCTCTTTCAACTATTGGCAGAAGTACTCTCGAGATTAATCCTGACC

EST: gi|61118643|gb|DN559604.1|DN559604

EST:     CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAG                         GCGTGTCTCTTTCAACTATTGGCAGAAGTACT
genomic: CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatc ... tgtgttgtagGCGTATCTCTTTCAACTATTGGCAGAAGTACT

EST: gi|32914104|gb|CF018916.1|CF018916

EST:     CAGTTCTCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAG                         GCGTGTCTCTTTCAACTATTGGCAGAAGTACTCTCGAGATTAATCCTGACT
genomic: CAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatc ... tgtgttgtagGCGTATCTCTTTCAACTATTGGCAGAAGTACTCTCGAGATTAATCCTGACC

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: 765

TGGAATGATCTTGCTACTACGACTGGCCAAGAGCTTTTGGACATGGTTGACAGTTCGCCTGTTGTTGCGATAAAGAGCCTAAAAGTATCTGACTTCCAAGgtacatcatc ... tgtgttgtagGCGTATCTCTTTCAACTATTGGCAGAAGTACTCTCGAGATTAATCCTGACCTGCCTGAGGCTAAGAATCTGAAGTCCTG

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 142

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 120