ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtatgttctgatttatattatctagagaagttatgtttatgtggatcctgtcacctccattctgtaaatctactggttagagatgctgtaatgttttgtaggcctcactgtttgtcatttgttggtcttgcttctctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCCTCTTGATGTGCCAGAATACATCTTCTGATGATCACAGCAGAAATAAATG

Basic information

species	Zea mays
transcript	GRMZM2G173354_T02
intron #	4
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G173354_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g16390.1 (Oryza sativa), 3'ss of exon 4

gtatgttctgatttatattatctagagaagttatgtttatgtggatcctgtcacctccattctgtaaatctactggttagagatgctgtaatgttttgtaggcctcactgtttgtcatttgttggtcttgcttctctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCCTCTTGATGTGCCAGAATACATCTTCTGATGATCACAGCAGAAATAAATG
|||||||   | |||  ||    | |  | ||  ||||   | |||      ||||   ||    |||| ||  |||   | ||  | ||   ||||| |       ||||| |  || | |   |  |  || |   |  | |||||||||| |||||||| ||||| || || |||| ||||||  | |||||||| ||  | ||||| |||||||||||||       |     | | |  
gtatgtttcaacttagcttg---ataatatttcagtttcacttgatgaatgaacct---tttcagaaatgtaggggtggcaaata-tatatatttttgaa-------ctgttggagatatttatattgtatttgttcattta-gGTTGAGCCGGCCTGAAGGAAAGCCATTTGAGGTCACGGTGGCTGCGTTCCCTCTGGAAATACCAGAGTACATCTTCTGATTTCTGAGGATTGTACATAGT

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|211534671|gb|FL445689.1|FL445689

EST:     CCCCAAGTACCTGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCTGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCTCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|148986479|gb|EE030223.2|EE030223

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCNNNNNNNCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|94475660|gb|EB704618.1|EB704618

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|71306414|gb|DR789352.1|DR789352

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|211097823|gb|FL296747.1|FL296747

EST:     CCCCAAGTACCTGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|101390441|gb|EB817155.1|EB817155

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTTGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|30306849|gb|CD001522.1|CD001522

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|5761988|gb|AI967036.1|AI967036

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|71762381|gb|DR960318.1|DR960318

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|78090335|gb|DV518709.1|DV518709

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|86467750|gb|DY234120.1|DY234120

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|6022043|gb|AW066986.1|AW066986

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|166659003|gb|EG171721.1|EG171721

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|78078858|gb|DV507270.1|DV507270

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTTGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|26557637|gb|CA829872.1|CA829872

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|76010764|gb|DT937934.1|DT937934

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|95107853|gb|EB740082.1|EB740082

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|60340433|gb|DN207406.1|DN207406

EST:     CCCCAAGTACCTGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|71427864|gb|DR808914.1|DR808914

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|5740558|gb|AI948248.1|AI948248

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|67023051|gb|CO451800.1|CO451800

EST:     CCCCAAGTACCTGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|211097821|gb|FL296745.1|FL296745

EST:     CCCCAAGTACCTGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCTCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

EST: gi|76911327|gb|DV164233.1|DV164233

EST:     CCCCAAGTACCAGGATCTGTGGAGGGCNNNNNNNCGTTTGTGCCGGGCAA                         GTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC
genomic: CCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCC

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: 46 (upstream exon), 49 (downstream exon)
Score: 107

TACTGTTACCTGGTGAGGATGAGTTTGTCTACGAGAGTTGCACGCCACTGCCCCAAGTACCAGGATCTGTGGAGGGCTCTTTTTCGTTTGTGCCGGGCAAgtatgttctg ... tctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCCTCTTGATGTGCCAGAATACATCTTCTGATGATCACAGCAGAAATAAATG

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 51

Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 67

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 77

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

aatgttttgtaggcctcactgtttgtcatttgttggtcttgcttctctttgcaagGTTGAGCCGACCTGAAGGGAAGCCGTTCGAAGTCATGGTGGCGCCTTTCCCTCTTGATGTGCCAGAATACATCTTCTGATGATCACAGCAGAAATAAATG