ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttacttgtgtatttattcttgcaatctggtgtgttttacagttccgtgatgttttcgctctagtattgttgtttataaatggttaggagtacctc...

Basic information

species	Zea mays
transcript	GRMZM2G032367_T04
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G032367_T04 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 5'ss of exon 6

GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttacttgtgtatttattcttgcaatctggtgtgttttacagttccgtgatgttttcgctctagtattgttgtttataaatggttaggagtacctc-
                            |||||||||||||| ||||||||||| || |||||||||||||| ||||||||||||||||| ||||||||||||  |  | |      | | |  | |  |  ||  | |      | | | || | | |         |    |  |||| |||   | | ||    ||  
----------------------------GCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAGgtaaatctcattctctgtcagttatacc-ttaggcatttgcagttgctacttgctatgtgtatcgcccttaattcctttacaaacaataaagatgctcttg

upper sequence: GRMZM2G032367_T04 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA19G24620.2 (Glycine max), 5'ss of exon 5

GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtac-tttacttgtgtatttattcttgcaatctggtgtgttttacagttccgtgatgttttcgctctagtattgttgtttataaatggttaggagtacctc
                            ||  | ||||||||||||||||||||||| || ||||| ||||| || ||||| |||||||||||||||   |||  ||   || | | |  | ||||  | | |  |  ||     | ||   | |  |||||    | |  |  | |   ||    ||  |  | ||||| 
----------------------------GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCAgtaagttcttttttatctaaagtcttctattttatttagtaaagtaattttataaatttttctaagttgactgatggaaaatgttaggccaccaatacct-

upper sequence: GRMZM2G032367_T04 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA16G06700.2 (Glycine max), 5'ss of exon 5

GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgta----ctttacttgtgtatttattcttgcaatctggtgtgttttacagttccgtgatgttttcgctctagtattgttgtttataaatggttaggagtacctc
                            ||  | ||||||||||||||||||||||| || ||||| ||||| || ||||| |||||||||||||||  ||||    |||   |  | | || | ||||  | | |  |  ||     | ||   |    ||| | |  | |  |  | |   ||    ||  |  | ||    
----------------------------GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCGgtaaattcttctttcttatcttaagtcttctactttatttagtaaagtaattttatacattttgctcagttgactgatggaaaatgctaggccaccaata----

upper sequence: GRMZM2G032367_T04 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 5

GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttacttgtgtatttattcttgcaatc-tggtgtgttttacagt--tccgtgatgttttcgctctagtattgttgtttataaatggttaggagtacctc
                            ||  | |||||||||||||||||||| || || ||||| ||||| || ||||| || ||||||||||||  ||||  ||  |||| |||| |   ||  |||  |  ||  | || | ||      ||    ||   |   |||  | || | | | ||| | ||| | ||| | 
----------------------------GCTCGTCACAATGGTCAGAACTATGTGTTTGCACTTCTAACTGGTTATCGTGACCCTCCTGCTGGTGTTTCGgtaaattg-ttgtctattaacatttttaattattatgcttattgctgtaacttttgcacattctaccaaagttgtcttatatgtcaattgctag-actacgt-

upper sequence: GRMZM2G032367_T04 (Zea mays), 5'ss of exon 4
lower sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 5

GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttacttgtgtatttattcttgcaatctggtgtgttttacagttccgtgatgttttcgctctagtattgttgtttataaatggttaggagtacctc
                            ||| | ||||||||||  |||||||| || || ||||| ||||| ||||||||||| ||||||||  |   ||||  || ||    | ||     ||| | |        | ||  | |||    | ||  | | | |   |     | | |||| ||   ||         
----------------------------GCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCGgtaagtttctctcattttccacattgaact--------tcttcgaattc---aaagtgctggttatgaaaaatccgatgataactgtacag---------

upper sequence: GRMZM2G032367_T04 (Zea mays), 5'ss of exon 4
lower sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 5

GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgta-------ctttacttgtg-tatttattcttgcaatctggtgtgttttacag-ttccgtgatgttttcg----ctctagtattgttgtttataaatggttaggagtacctc
                            ||  | ||||||||||| |||||||| || || || || ||||| ||||||||||||||||||||  ||  ||||       ||| |||  || ||||  || |     |    | |||   ||||  | | | || || |      || ||  ||      || |  ||  |            
----------------------------GCTCGCCACAATGGTCAAAACTATGTATTTGCACTGCTAACTGGTTACCGTGATCCACCTGCTGGCATTTCGgtaaattcttcttcactgatgatattagttttcatggttaattttgtgacacagacttcataattttcttataaactttaacatcacgactt-tgtatttt------------

upper sequence: GRMZM2G032367_T04 (Zea mays), 5'ss of exon 4
lower sequence: Vv09s0002g05950.t01 (Vitis vinifera), 5'ss of exon 4

GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttacttgtgtatttattcttgcaatctggtgtgttttacagttccgtgatgttttcgctctagtattgttgtt-tataaatggttaggagtacctc-
                            ||  | |||||||||||||| ||||| || |||||| | ||||| ||||||||||| || |||||||||   |||  ||  || | |     |   |  || |   |||  |  |   | ||  | |  |        ||| |   ||   |||     |||| | |    |  
----------------------------GCCCGCCACAATGGTCAGAATTATGTATTTGCTCTTTTAACTGGTTACCGTGATCCTCCAGCTGGTGTTTCAgtaagttctttatctcagattatatataaac--atgtaatagaacatacctaggtactgaaatctgagtttatctgccatattttcagttatgtgatgatgt

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|71763205|gb|DR961142.1|DR961142

EST:     ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG                         ATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC
genomic: ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttact ... tgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC

EST: gi|14245130|gb|BG873712.1|BG873712

EST:     ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG                         ATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC
genomic: ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttact ... tgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC

EST: gi|76290228|gb|DV029796.1|DV029796

EST:     ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG                         ATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC
genomic: ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttact ... tgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC

EST: gi|71757789|gb|DR955726.1|DR955726

EST:     ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG                         ATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC
genomic: ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttact ... tgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC

EST: gi|211323657|gb|FL286663.1|FL286663

EST:     ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG                         ATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC
genomic: ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttact ... tgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC

EST: gi|37386374|gb|CF630373.1|CF630373

EST:     ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG                         ATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC
genomic: ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttact ... tgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC

EST: gi|29947382|gb|CB816627.1|CB816627

EST:     ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG                         ATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC
genomic: ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttact ... tgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC

EST: gi|78026464|gb|DV494851.1|DV494851

EST:     ATTTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG                         ATTTGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC
genomic: ATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttact ... tgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCC

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: 48 (upstream exon), 49 (downstream exon)
Score: 122

GCTTACTGTTTGCATTGCATTCATCCAGGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAGgtactttact ... tgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCCATGCCCAAGATGCTCAATGATGGAGCTGTTGAGTATGAGGATGGTACTC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 178

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 151