ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

...ctgaaacctcttcgtacatcaattattggagttagtatttagggttgatagttgctaattttacttgtcgagcccaatgctatctgtttcatcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAAGGCGAAGCTAGTGCAGGAAATCAGGGAATGCTATCACCCTATAGATCCA

Basic information

species	Zea mays
transcript	GRMZM2G107491_T02
intron #	5
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G107491_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g68860.3 (Oryza sativa), 3'ss of exon 4

------------------------------ctgaaacctcttcgtacatcaattattggagttagtatttagggttgatagttgctaattttacttgtcgag--cccaatgctatctgtttcatcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAAGGCGAAGCTAGTGCAGGAAATCAGGGAATGCTATCACCCTATAGATCCA
                               || || |   || |||| |||||  |||| | | || | |  ||||||  ||  | ||||| ||| || ||  || |||| |  |||||||||||||| || |||  |||||||| || |||||||||||||| ||||||| ||| || ||||  || || |||||||| |                              
tttattttttgaaagtgaaaagctataacattggaatccactcttacaccaattgctggaatca-tact-aaagttgattttttgtgattttgcttttcaagGGCCAAATGATGCCTGTTTCATCTTCTGAGAGTCGACTGCAGTCCCCAGGGGCTCAACAAACCTATGGAACTTCTCAGCAAGTTGATGCCAGTGCAGGCA------------------------------

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|32842295|gb|CD981976.1|CD981976

EST:     ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|211087415|gb|FL153990.1|FL153990

EST:     TGGTTGTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: TGGTTGTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|32839671|gb|CD979352.1|CD979352

EST:     ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|32920955|gb|CF025767.1|CF025767

EST:     ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|32842543|gb|CD982224.1|CD982224

EST:     GTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: GTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|24934304|gb|CA452522.1|CA452522

EST:     GTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: GTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|32921366|gb|CF026178.1|CF026178

EST:     ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|76290171|gb|DV029739.1|DV029739

EST:     TGGTTGTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: TGGTTGTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|32921013|gb|CF025825.1|CF025825

EST:     GTACCTCATGGCC-TGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: GTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|32839512|gb|CD979193.1|CD979193

EST:     ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

EST: gi|32920651|gb|CF025463.1|CF025463

EST:     ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCT                         GGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA
genomic: ACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAA

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), 49 (downstream exon)
Score: 109

TTCTTTTATACCAAGCCCTAGGTGGCAAAGTCCTTCAAATTATGCACCAATGGTTGTACCTCATGGCCTTGTCCAAGTGCCGAGCTGGAATTCATATCCTgtaagttcat ... atcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAAGGCGAAGCTAGTGCAGGAAATCAGGGAATGCTATCACCCTATAGATCCA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 88

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 127

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 148

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tgatagttgctaattttacttgtcgagcccaatgctatctgtttcatcttctcagGGTCAGCTGCAGTCACCTGGGGCTCAACAAACTTATGGAAGTTCACAACAAGGCGAAGCTAGTGCAGGAAATCAGGGAATGCTATCACCCTATAGATCCA