ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACCTCCACATAAACCGATTCTCCTTGATTTTGGGCTCACTAAGCGCATATCTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAGgtttgtgaaccttgatcttctaaataatgcacaatgaagatagtaccttgctagtataatataaatcattcccttcttttcttactgtagatttagaacc...

Basic information

species	Zea mays
transcript	GRMZM2G140917_T01
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G140917_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os06g48770.1 (Oryza sativa), 5'ss of exon 9

ACCTCCACATAAACCGATTCTCCTTGATTTTGGGCTCACTAAGCGCATATCTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAGgtttgtgaaccttgatcttctaaataatgcacaatgaagatagtaccttgctagtataat-ataaatcattcccttcttttcttactgtagatttagaacc--
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ACCTCCACACAAGCCGATTCTCCTTGATTTTGGGCTTACTAAACGCATATCTCAATCAATGAGGCAGGCACTAGCAAAGATGTTTTTGTCATGCGCTGAGgtttg-acactttgatcttctaaataatacatacacaaggaaacaaataatggagttaatcaaacatggttgtcttgttggcat-ctacaagct-gcagccat

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|211144291|gb|FL032433.1|FL032433

EST:     CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAG                         GGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG
genomic: CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAGgtttgtgaac ... tgatctgtagGGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG

EST: gi|148966697|gb|EE017760.2|EE017760

EST:     CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAG                         GGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG
genomic: CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAGgtttgtgaac ... tgatctgtagGGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG

EST: gi|211144284|gb|FL032426.1|FL032426

EST:     CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAG                         GGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG
genomic: CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAGgtttgtgaac ... tgatctgtagGGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG

EST: gi|211144280|gb|FL032422.1|FL032422

EST:     CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAG                         GGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG
genomic: CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAGgtttgtgaac ... tgatctgtagGGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG

EST: gi|211142860|gb|FL032421.1|FL032421

EST:     CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAG                         GGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG
genomic: CTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAGgtttgtgaac ... tgatctgtagGGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTG

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: 34

ACCTCCACATAAACCGATTCTCCTTGATTTTGGGCTCACTAAGCGCATATCTGAATCTATGAGGCAGGCACTAGCAAAAATGTTTTTGTCATGTGCAGAGgtttgtgaac ... tgatctgtagGGAGATCACGTGGCACTGCTGTCAGCATTTTCAGAGATGGGGCTTAAACTGCGGGTTGACATGCCTCAGCAGGCTATGGATATTGCCACAGTATTCTTTC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 362

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 498