ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATCAATTTTCTGCGCGTTCGTTGCCAAGGAATTGATGGATAAGTTCTCTTATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatggttcttagcctttttcaaatcaccgcgctcatttatttcctgagctgtgttgtactggtactgctttaatatataatgcagttatgagaac...

Basic information

species	Zea mays
transcript	GRMZM2G433942_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G433942_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g70100.1 (Oryza sativa), 5'ss of exon 2

ATCAATTTTCTGCGCGTTCGTTGCCAAGGAATTGATGGATAAGTTCTCTTATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatggttcttagcctttttcaaatcaccgcgctcatttatttcctgagctgtgttgtactggtactgctttaatatataatgcagttatga--gaac
 ||||| || ||   |||||||||||| ||| ||||| |||| || ||||||||||||||||| || || |||||| |||||||| | ||||| |||||||| |||||   | | | |||||| ||| | |||    |||||  |||||  |  ||||||| | |     |   | | | |        ||| | |  ||| 
GTCAATCTTTTGTTTGTTCGTTGCCAAAGAACTGATGAATAACTTTTCTTATGGTCTGGGATTACCAGTAATGATTTCAGCAGTTGTGTTCACGGCATATgtaagtatcactgtcaacctttt-caatttaccttcttcattggtttccacaaatgtgttgcaattagtatatgtgatttttgggataggttgtaattgaa-

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|71330995|gb|DR802320.1|DR802320

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|26558272|gb|CA830507.1|CA830507

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|149046484|gb|EE048006.2|EE048006

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|20512953|gb|BQ280139.1|BQ280139

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|91868690|gb|EB400117.1|EB400117

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|148953730|gb|EC899096.2|EC899096

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|26456686|gb|CA828269.1|CA828269

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|50332834|gb|CO527960.1|CO527960

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|148990678|gb|EE032074.2|EE032074

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|4753375|gb|AI657280.1|AI657280

EST:     TCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: TCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|76921843|gb|DV168729.1|DV168729

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|148944134|gb|EC889222.2|EC889222

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|149106439|gb|EE188329.2|EE188329

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|148973614|gb|EE024722.2|EE024722

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|21987320|gb|BQ778848.1|BQ778848

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|76017769|gb|DT944939.1|DT944939

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|211006833|gb|FL318418.1|FL318418

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCGTTCTAACTTC
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGC-TTCTAACTTC

EST: gi|29167811|gb|CB411071.1|CB411071

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

EST: gi|148943919|gb|EC888999.2|EC888999

EST:     ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATAT                         GATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT
genomic: ATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCT

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: 695

ATCAATTTTCTGCGCGTTCGTTGCCAAGGAATTGATGGATAAGTTCTCTTATGGTCTGGGATTGCCGGTTATGATTGCAGCAGTTCTATTCACAGCATATgtgagtatgg ... cacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCTCGCAATGCACATCCTCCAGAACCCGAAGGGTTTGATGGCAATGCAGAGG

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 101

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 56