ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AATTCCCCATTTTTAGCATCTGTTGCACCTGGAACCATTCCAGCAAGCTCTCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgatcttaaagctcttcctatgtcaatgcactgcaatttggtatattttcgcgaaagggcctctagcgtaatggttaaggcttccgagtagcac...

Basic information

species	Zea mays
transcript	GRMZM2G081812_T02
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G081812_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os09g38790.1 (Oryza sativa), 5'ss of exon 4

---AATTCCCCATTTTTAGCATCTGTTGCACCTGGAACCATTCCAGCAAGCTCTCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgatcttaaagctcttcctatgtcaatgcactgcaatttggtatattttcgcgaaagggcctctagcgtaatggttaaggcttccgagtagcac---
   | ||| |||| | ||||||||||||||||||||| ||| ||| ||||||||||| |||   | | |  ||||||| | ||||||| | | | ||||||||||| |   | || |     ||| | |  |     |  |  |  |  | | |||    |   ||    |      |  || |      ||| |   || |    
GTAAGTTCTCCATATGTAGCATCTGTTGCACCTGGAAGCATCCCAACAAGCTCTCCATCAG---TTGCTCCTGCAGGAGTAGGATATGCAGCTACTAACCAAGgtaag---agctgattttcctttcaacttatgacccttctatataagcaaattgagactctagatttttattatttgtgatggcaatttctgtagaggaaatt

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|91053283|gb|EB163701.1|EB163701

EST:     TCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAG                         GCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG
genomic: TCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgat ... atcttctcagGCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG

EST: gi|78092548|gb|DV520922.1|DV520922

EST:     TCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAG                         GCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG
genomic: TCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgat ... atcttctcagGCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG

EST: gi|78103455|gb|DV521883.1|DV521883

EST:     GCAGGAATTGGATATGGAACCAATAACCAAG                         GCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG
genomic: GCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgat ... atcttctcagGCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG

EST: gi|78544622|gb|DV622120.1|DV622120

EST:     TCCAGCAGCAGTCGGTGTTTCAGGAATTGGATATGGAACCAATAACCAAG                         GCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG
genomic: TCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgat ... atcttctcagGCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG

EST: gi|37375365|gb|CF624113.1|CF624113

EST:     TCCAGCAGCAGTCGGTGTTTCAGGAATTGGATATGGAACCAATAACCAAG                         GCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG
genomic: TCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgat ... atcttctcagGCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG

EST: gi|78103456|gb|DV521884.1|DV521884

EST:     GCAGGAATTGGATATGGAACCAATAACCAAG                         GCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG
genomic: GCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgat ... atcttctcagGCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG

EST: gi|78545018|gb|DV622516.1|DV622516

EST:     TCCAGCAGCAGTCGGTGTTTCAGGAATTGGATATGGAACCAATAACCAAG                         GCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG
genomic: TCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgat ... atcttctcagGCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGG

EST: gi|26457257|gb|CA828840.1|CA828840

EST:     TCCAGCAGCAGTCGGTGTTTCAGGAATTGGATATGGAACCAATAACCAAG                         GCACTAGAGATCCAGCAGTTGGATCTT
genomic: TCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgat ... atcttctcagGCACTAGAGATCCAGCAGTTGGATCTT

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), 48 (downstream exon)
Score: 253

AATTCCCCATTTTTAGCATCTGTTGCACCTGGAACCATTCCAGCAAGCTCTCCAGCAGCAGTCGGTGTTGCAGGAATTGGATATGGAACCAATAACCAAGgtatgttgat ... atcttctcagGCACTAGAGATCCAGCAGTTGGATCTTCACCTGCAGTATCCAATAATAAGGCGTCTGGTGCCCAACCAGCTACGAATGAGGTATATCTGGTGTGGGATGA

Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 149

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 188