ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CAGTTTGATATTTGAATTCGTCAACAACACAGACTTCAAAGTCTTGTACCCCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattgccatctgaattatttgacacatgtcatttactcatttagacattacattattttttcgtggattcttttcaagtagttcttttcttatct...

Basic information

species	Zea mays
transcript	GRMZM2G047855_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G047855_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g55389.1 (Oryza sativa), 5'ss of exon 3

CAGTTTGATATTTGAATTCGTCAACAACACAGACTTCAAAGTCTTGTACCCCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattgccatctgaattatttgacacatgtcatttactcatttagacattacattattttttcgtggattcttttcaagtagttcttttcttatct-----
 || ||||| |||||||  |||||||| ||||||||||||||  |||||||||| ||||| |||||||| |||||||||||||||||||||||||||||||||   ||||    ||  ||| |    |  || | ||||||||  ||    |  ||||  | || | ||||||   | |  | |  |   | ||||||       
TAGCTTGATCTTTGAATATGTCAACAATACAGACTTCAAAGTGCTGTACCCCACGTTGACAGATTATGATATCCGCTACTACATATATGAGCTACTCAAGgtcttcattga-gccttcattgtcatccctat-ttatttactctattcagtaaaacatcctgttct-gtggatc--tgtagaatgatgtatctcttatagaaatt

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|67025945|gb|CO454694.1|CO454694

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|67040594|gb|CO466849.1|CO466849

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|60357494|gb|DN224467.1|DN224467

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|148932884|gb|EE285654.2|EE285654

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|149039473|gb|EE046613.2|EE046613

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|87156044|gb|DY400833.1|DY400833

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|32839753|gb|CD979434.1|CD979434

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|32925412|gb|CF030224.1|CF030224

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|149104221|gb|EE289654.2|EE289654

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|149072883|gb|EE161139.2|EE161139

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGAT
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGAT

EST: gi|149097607|gb|EE183500.2|EE183500

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

EST: gi|71446427|gb|DR827477.1|DR827477

EST:     CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAG                         GCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC
genomic: CCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCC

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: 48 (upstream exon), 48 (downstream exon)
Score: 302

CAGTTTGATATTTGAATTCGTCAACAACACAGACTTCAAAGTCTTGTACCCCACATTGACGGATTATGACATCCGCTACTACATATATGAGCTACTCAAGgtcacgattg ... ttaattccagGCTCTAGATTACTGCCATTCTCAAGGCATCATGCATCGAGATGTCAAGCCCCATAATGTCATGATAGATCACGAGCTTCGCAAACTTCGGTTGATAGACT

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 422

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 459