ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

...tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA

Basic information

species	Zea mays
transcript	GRMZM2G068586_T01
intron #	2
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g48370.1 (Oryza sativa), 3'ss of exon 2

----------------tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
                |||||||||   |  || | |      |   | |||||||| ||| || | ||||||||||||||  |  | | |              | || ||| |||| ||||||||||||||||||| ||||||||||||||||| ||||| |||||||||||||||||||||||  |||| |||||||| || ||| | |||||
atatttttccttctggtttttgtac--caactgcaatgccatatggactttttcaccatcaaatgtgcttgatgattaatatatacttttt--------------gtatatgatagCAACTGTGGATAAAGGGAAGTTCCTCATGGCTGCTAGAAGGTTTAGACGTGGTCCCCATACCGAGTACATCGTATCCCTTGATGCTGATGACCTTTCACA

upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G34470.1 (Glycine max), 3'ss of exon 2

-tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgatta-ataccttt---tctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
 |  |  | ||  | || |  ||| ||||     ||| |    |  ||| | ||  |   |||  |  ||||   ||||    | |||| |    |   || |||||      |||||||||||||||||  | || ||||| |||| |||| ||||| | ||||||||||| || || || |||||||| || || ||||| ||
atggtaatgcac-atatttggtttctcttttaagtttcc----tttgatgtgctcaaaatttatgtctctttatgtctcctcttttctcctccacccattgccagCATTCACAGATAAAGGGAAGTTTCTGCTAGCAGCTAGGAGATATAGGTGTGGTACTCATACCGAGTATATAATTTCACTTGATGCTGATGATTTATCCCA

upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G35920.1 (Glycine max), 3'ss of exon 2

tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctct--ctctctctttgggcatc---tgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
|  |  | ||     | |  ||| ||||     |||||    |  ||| | |||||  ||| || ||| ||   | |  |||| |  |    || |   || |||||      |||||||||||||||||  | || ||||| |||| |||| ||||| ||||||| ||||| || || || |||||||| || |||||||| ||
tcataatgcacatattttggtttctcttttaagttttc----ttggatgtgcttga-aatttatgcctctttattgttactcttttctcccccacccattgccagCATTCACAGATAAAGGGAAGTTTCTGCTAGCAGCTAGGAGATATAGGTGTGGTACCCATACTGAGTATATAATTTCACTTGATGCTGATGACTTATCCCA

upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: Vv19s0014g01250.t01 (Vitis vinifera), 3'ss of exon 2

----tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
      | | || ||   ||| || |||||| |     | |      ||  | |  |  ||| || |  |||      |||   | || ||     ||   |||||      ||||| |||||||||||| | |||||| |||||| ||||| |||| | || ||||||||||| ||||| |||||||| || ||| |||| ||
ctttgatgtatatatataatgcatattttctcctttaatgttggta-catgtgttgtaaatgtttcaatcctggctcatctgagtgtcctt---tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATGGTGCTCACACCGAGTACATAATATCACTTGATGCTGATGACATATCTCA

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|26456630|gb|CA828213.1|CA828213

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG

EST: gi|211227913|gb|FL059245.1|FL059245

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTG-TGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGT

EST: gi|71772807|gb|DR970732.1|DR970732

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCT

EST: gi|148950368|gb|EC895931.2|EC895931

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG

EST: gi|211227911|gb|FL059243.1|FL059243

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTT-CTCATGGCTGCTAGAAGATT-AGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG

EST: gi|211227905|gb|FL059237.1|FL059237

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTTAGGCGT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTT-AGGCGT

EST: gi|78078970|gb|DV507382.1|DV507382

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG

EST: gi|149111829|gb|EE190984.2|EE190984

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG

EST: gi|71310923|gb|DR791764.1|DR791764

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG

EST: gi|76914172|gb|DV165433.1|DV165433

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG

EST: gi|20803223|gb|BQ294273.1|BQ294273

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG

EST: gi|211227912|gb|FL059244.1|FL059244

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGT

EST: gi|67022110|gb|CO450859.1|CO450859

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGCT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG

EST: gi|211227918|gb|FL059250.1|FL059250

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGAT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGAT

EST: gi|211229972|gb|FL059251.1|FL059251

EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAA
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAA

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: 202

CCAGGGCCAAGGGAGAGACCAATGCAGTGCTTTATCAAGAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 162

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 192

Block sizes: 47 (upstream exon), 46 (downstream exon)
Score: 116

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

gatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA