ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcactggtgccttccccatgattttattttgccttgtgttggttccatcttttatttgtttccagttgatgtcttgtactacatttgctttagtt...

Basic information

species	Zea mays
transcript	GRMZM5G841900_T05
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G841900_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g57070.1 (Oryza sativa), 5'ss of exon 3

GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtg-gtgcactggtgccttccc---catgattttattttgccttgtgttggttccatcttttatttgtttccagttgatgtcttgtactacatttgctt-tagtt----------------------------------------------------------------------------------
|| || |||||||||||||| ||||| ||||||||||| ||||||||||||||||||||| |||  |||||||||||||||||||||||||  | |  ||| |  |||  |    ||| ||  ||||   | | | |  |     |||| |||| | |||   |||| |||   ||| | |     ||  | |                                                                                   
GTGACGAAGGTTATGGCTAGGATGGCTTCTGCAGATATAATGTGTGTTGACTCAAAGGCTGTCAAGGAAAAGTTCACTGGCATGATAAGgtacgggttctgttttctttgctgatatgcttccatttaaacctttttcagggatctcttgtatt-gcttcgctttga-gtcagttaccaaacacatttacaatccaatgctcctgcttgccatatgttccttttagactatcacaacaaagttcttcatggttcagctatgctcctctgtttgtag

upper sequence: GRMZM5G841900_T04 (Zea mays), 5'ss of exon 3
lower sequence: Vv04s0043g00400.t01 (Vitis vinifera), 5'ss of exon 3

GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtg-gtgcactggtgccttccccatgattttattttgccttgtgttggttccatcttttatttgtttccagttgatgtcttgtactacatt-tgctttagtt--
|| || || |||||||||||||||||||| || ||||| |||||||||| | | ||| || |  ||||||| || ||||| || || ||||  ||  | |  |   |  |     | |  |        ||       ||  |  |||| |||||    |||||| |  || | |  |||    ||||  |  
GTTACTAAAGTTATGGCTAGAATGGCCTCAGCTGATATAATGTGTGTTGGCCCCAAGTCTGTGCGAGAAAAATTTACTGGAATAATTAGgtatgtaaatttttatgtatctgtctaatggaaaaaaggatgca---aatctgttatttagttgttgattgttgat-ttgtgcaatgaattgcagtttaaatga

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|211102908|gb|FK962289.1|FK962289

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGANATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|211118860|gb|FL110175.1|FL110175

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGT
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGT

EST: gi|32796285|gb|CD948521.1|CD948521

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|211102904|gb|FK962285.1|FK962285

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|211118861|gb|FL110176.1|FL110176

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|211118854|gb|FL110169.1|FL110169

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|76012394|gb|DT939564.1|DT939564

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|211118858|gb|FL110173.1|FL110173

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|211102910|gb|FK962291.1|FK962291

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|211118859|gb|FL110174.1|FL110174

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATSATAAG                         GCAGCAAGATGTTCGTGCAACTGAAAT
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAAT

EST: gi|211102911|gb|FK962292.1|FK962292

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|166676501|gb|EG058226.1|EG058226

EST:     AGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAAAT
genomic: AGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAA-T

EST: gi|148939988|gb|EC884719.2|EC884719

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|74244670|gb|DT652584.1|DT652584

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|50328543|gb|CO523669.1|CO523669

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|211102902|gb|FK962283.1|FK962283

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|71428020|gb|DR809070.1|DR809070

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

EST: gi|211102903|gb|FK962284.1|FK962284

EST:     ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG                         GCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC
genomic: ATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATC

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), 48 (downstream exon)
Score: 140

GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAGgtggtgcact ... ttacctgcagGCAGCAAGATGTTCGTGCAACTGAAATTGACAAGGTGGATATGTACCAATCATATCGTCCTGGGGACATTGTTAAAGCTATGGTTGTATCCTTAATTGAC

Block sizes: 43 (upstream exon), 49 (downstream exon)
Score: 57

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 86