ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

TGGGGATAGGGATGGTTACAGAGGAGGTCCACGAGGTGCAATGGGTGATTTTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttctagaaaactgcgcgcatctcacatatttttttgtttacattggtttcttaactcacaaatgtccagttcgtttcaagaaaacaagcttattt...

Basic information

species	Zea mays
transcript	GRMZM2G171484_T01
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G171484_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os01g73160.1 (Oryza sativa), 5'ss of exon 4

TGGGGATAGGGATGGTTACAGAGGAGGTCCACGAGGTGCAATGGGTGATTTTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttctagaa-aactgcgcgcatctcacatatttttttgtttacattggtttcttaactcacaaatgtccagttcgtttcaagaaaacaagcttattt--
||| || |||||||||||||| || || ||||| |||||    |||||||||||||| ||||||||| ||||||| || || |||||||||||||||||||||||  ||  ||  ||     ||||  |  ||||    ||| |    |           |||| | ||      || | ||  |  ||    |   ||||  
TGGTGACAGGGATGGTTACAGGGGTGGCCCACGTGGTGCTCCAGGTGATTTTGGTGGCGAGAAGGGTGGTGCTCCAGCTGAGTTCCAGCCATCTTTTAGGgtaagagctctaatgaccatctgcatacc-tatatgccattgctaggttcatccagactgctcatagataatttattggctt--aataatttggaacatttga

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|78544011|gb|DV621509.1|DV621509

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|60339885|gb|DN206858.1|DN206858

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|67035082|gb|CO463615.1|CO463615

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|17932184|gb|BM269144.1|BM269144

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|28930975|gb|CB334336.1|CB334336

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|28873901|gb|CB329830.1|CB329830

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|211023430|gb|FL440278.1|FL440278

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTTGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|76011993|gb|DT939163.1|DT939163

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|76921190|gb|DV168486.1|DV168486

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|14203665|gb|BG837342.1|BG837342

EST:     TTGGTGGTGAGAAGGGTAGTGCTC-TGCGGATTTCCAGCCATRTTTTAGG                         GGTAGCAGACCTGGCTTTGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|5928876|gb|AW056168.1|AW056168

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|37374445|gb|CF623580.1|CF623580

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|166522729|gb|EG304475.1|EG304475

EST:     TGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|113772208|gb|DW892682.1|DW892682

EST:     GGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGNGCCAGT
genomic: GGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|113769979|gb|DW888173.1|DW888173

EST:     GAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: GAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|67030453|gb|CO459202.1|CO459202

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|40303243|gb|CK347630.1|CK347630

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|67017230|gb|CO445979.1|CO445979

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|14243837|gb|BG841533.2|BG841533

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|31353380|gb|CD437737.1|CD437737

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTTGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|211053110|gb|FL123926.1|FL123926

EST:     TTGGTGGTGAGGAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTT-AGG                         GGTAGCAGACCTGGCTTTGGGCGTGGTGGCGGCAGCGCTTTTGGTGC
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGC

EST: gi|29130033|gb|CB380737.1|CB380737

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|211056051|gb|FL123938.1|FL123938

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|30087411|gb|CB885617.1|CB885617

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTATGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|37381614|gb|CF627703.1|CF627703

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGTCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|31355636|gb|CD439993.1|CD439993

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTTGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|211023429|gb|FL440277.1|FL440277

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTTGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|30087412|gb|CB885618.1|CB885618

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|76011994|gb|DT939164.1|DT939164

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|60338236|gb|DN205209.1|DN205209

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|31356366|gb|CD440723.1|CD440723

EST:     TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTTGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

EST: gi|166685770|gb|EG157787.1|EG157787

EST:     TGCGGATTTCCAGCCATCTTTTAGG                         GGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT
genomic: TGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGT

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: 47 (upstream exon), 49 (downstream exon)
Score: 125

TGGGGATAGGGATGGTTACAGAGGAGGTCCACGAGGTGCAATGGGTGATTTTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttcta ... tttttttcagGGTAGCAGACCTGGCTTCGGCCGTGGTGGCGGCAGCGCTTTTGGTGCCAGTGGATCTTCCATGGAGTGATCTATCAACTTAAGCGGGAAAATTGATTCAG

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 122

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 122

Block sizes: 44 (upstream exon), 44 (downstream exon)
Score: 71

Putative cis-regulatory sequences

atgc	intron	ATGC	exonic elements by Pertea et al.
ATGC	exon	atgc	putative intronic elements
		ATGC	putative exonic elements identified for retained introns

        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGGATAGGGATGGTTACAGAGGAGGTCCACGAGGTGCAATGGGTGATTTTGGTGGTGAGAAGGGTAGTGCTCCTGCGGATTTCCAGCCATCTTTTAGGgtaagttctagaaaactgcgcgcatctcacatatttttttgtttacattggtttcttaactcacaaatgtccagttcgtttcaagaaaacaagcttattt

- - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaac