ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGGTAAATCAACTACTTGTGTCGCCTTCATTCTTGCAATGTACAAGGAGGCTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgacatctcatgcttagtctctctatctcttcatccttctgtttgacgtgcattactaagtctagtcaaaccttgtgtcatttgattctgcttcttctgcctcag

Basic information

species	Zea mays
transcript	GRMZM2G031824_T01
intron #	6
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G031824_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os09g22440.1 (Oryza sativa), 5'ss of exon 6

TGGTAAATCAACTACTTGTGTCGCCTTCATTCTTGCAATGTACAAGGAGGCTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgacatctcatgcttagtctctctatctcttcatccttctgtttgacgtgcattactaagtctagt--caaaccttgtgtcatttgattctgcttcttctgcctcag-------------------------------------
||||||||| || || ||||| ||||| ||||||||||||||||||||||||||||||||||| |||||  | |||||||| ||||| ||||||||||||||||||  |     |    |      |  |      ||   |  | ||  || ||  | | |   | | ||  | | | || |  |||| | |  |||      | ||  |                                      
TGGTAAATCTACAACATGTGTTGCCTTTATTCTTGCAATGTACAAGGAGGCTGGAATATTCACGCCTTTTGCAGAGTCGATTCAGGTGACCGAGTTCACTgtaagtacctaactacttgtccaagttgcaggaaaacactgtgttcttcaacatgtttgaattcatttcgttgccatcattcttccattggttgatgccaaaagttccgaaattccctacaccaatctgactgtctacttctgcctcag

upper sequence: GRMZM2G031824_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA01G04400.1 (Glycine max), 5'ss of exon 6

TGGTAAATCAACTACTTGTGTCGCCTTCATTCTTGCAATGTACAAGGAGGCTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgacatctcatgcttagtctctctatctcttcatccttctgtttgacgtgcattactaagtctagtcaaaccttgtgtcatttgattctgcttcttctgcctcag
||| |||||||| || ||||| ||||| |||||| ||||||| || | |||||||||||||  |||| | ||    || || || || || || ||||| |||||  |    ||   ||||||   | || |    || ||| ||| | |   |  ||| ||   |||  |       | |||| ||   | | |               
TGGGAAATCAACAACATGTGTTGCCTTTATTCTTTCAATGTATAAAGCGGCTGGAATATTCGGCCCTATTTCTAGCTCCATTCAAGTAACTGAATTCACAgtaagccaagcttc---cttagtgcttataac----caacct-ctgatagttata-attgctttttcttat--gtttctatgtcgttatctgcag---------------

upper sequence: GRMZM2G031824_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA02G03160.1 (Glycine max), 5'ss of exon 6

TGGTAAATCAACTACTTGTGTCGCCTTCATTCTTGCAATGTACAAGGAGGCTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgacatctcatgcttagtc-tctctatctcttcatccttctgtttgacgtgcattactaagtcta-gtcaaaccttgtgtcatttgattctgcttcttctgcctcag
||| |||||||| || ||||| ||||| |||||| ||||||| || | |||||||||||||  |||| | ||    || || || || || || ||||| |||||  |    || |   |  |  |  | | |   | ||| || |  ||| | |   ||| |   |||| ||   |   ||                              
TGGGAAATCAACAACATGTGTTGCCTTTATTCTTTCAATGTATAAAGCGGCTGGAATATTCGGCCCTATTTCTAGCTCCATTCAAGTAACTGAATTCACAgtaagccaagcttccttagtgcttataaccaacctctgatcgttataattgccttttctta-tgtttctatgttgtaatctgcag---------------------------

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|148996937|gb|EE035749.2|EE035749

EST:     ATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGCCAAGGCTT
genomic: ATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|211426409|gb|FL402804.1|FL402804

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|76281016|gb|DV020584.1|DV020584

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|12968377|gb|BG265323.1|BG265323

EST:     AGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: AGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|78121397|gb|DV539781.1|DV539781

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|51592900|gb|CV072046.1|CV072046

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|78113166|gb|DV531560.1|DV531560

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|78111912|gb|DV530308.1|DV530308

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|88748743|gb|DY532884.1|DY532884

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|5846905|gb|AI999988.1|AI999988

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|76281015|gb|DV020583.1|DV020583

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|211231079|gb|FL455787.1|FL455787

EST:     GTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: GTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|149100418|gb|EE186493.2|EE186493

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|149007772|gb|EE040268.2|EE040268

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|5296289|gb|AI783059.1|AI783059

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

EST: gi|60672603|gb|DN475304.1|DN475304

EST:     CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACT                         ATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT
genomic: CTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTT

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: 202

TGGTAAATCAACTACTTGTGTCGCCTTCATTCTTGCAATGTACAAGGAGGCTGGAATATTCACCCCTTTCTCGGAGTCGATCCAGGTCACCGAGTTCACTgtaagtgaca ... tctgcctcagATTCGTGACGCATACATGCTCAAGATATTTGAAGACAACCCGGCAAGGCTTCCAGGTTGGTGCAACGCAGGCACGGACAAGCTTCCCTTTTGCCAGATTC

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 297

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 440