ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTCTGACAAGGAATCCGGACATCAGAAGACCATTTCATCATTGTCAAAATCCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaatttgttcaagttgactgtcgtaaagatacttatggtttccctgacattcaattttcgatgcatag

Basic information

species	Zea mays
transcript	GRMZM2G143330_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G143330_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv01s0011g06630.t01 (Vitis vinifera), 5'ss of exon 4

GTCTGACAAGGAATCCGGACATCAGAAGACCATTTCATCATTGTCAAAATCCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgt--tagaatttgttcaagttgactgtcgtaaagat-acttatggtttccctgacattcaattttcgatgcatag-----------------------------------------------------------------
||| ||||||||| |||| ||  | |||||  |  ||||| | |||||| |  ||||| | ||||||||| ||||||||||| ||||||||||||| |||||   | || |  ||    |  | |   ||    || |||| |   |  ||     | | | ||   ||   ||                                                                  
GTCAGACAAGGAAACCGGCCACAAAAAGACAGTAACATCACTTTCAAAAGCTGTAGATGGTTCACATTTTGTTACTGGCTCCCTGGATAAATCTGCTAAGgtagcataactcattgttttataattctgtgcccattacttttatctcaccctctgtaccacttattatctttatttttctattttggagcttcatcaagttttttcctgatgttgttttcttgtcgacaaatctcttag

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|71760667|gb|DR958604.1|DR958604

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|149043303|gb|EE047366.2|EE047366

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|101401501|gb|EB822430.1|EB822430

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAA

EST: gi|78119408|gb|DV537792.1|DV537792

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|101401499|gb|EB822429.1|EB822429

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|211094201|gb|FL010324.1|FL010324

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|74243657|gb|DT651571.1|DT651571

EST:     GGCTCCTGGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: GGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|91872573|gb|EB402530.1|EB402530

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|78119407|gb|DV537791.1|DV537791

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|37374667|gb|CF623711.1|CF623711

EST:     CCCTAGATTGGTCACATTTTATCACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|148995509|gb|EE034699.2|EE034699

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATNCA-GACATATGTCACAGAGAG
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGAT-CAAGACATATGTCACAGAGAG

EST: gi|148930479|gb|EE285032.2|EE285032

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|78087877|gb|DV516270.1|DV516270

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|71301123|gb|DR786594.1|DR786594

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|91872572|gb|EB402529.1|EB402529

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|71301121|gb|DR786593.1|DR786593

EST:     CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: CCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

EST: gi|31909651|gb|CD651025.1|CD651025

EST:     GGATAAATCTGCCAAG                         CTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA
genomic: GGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGA

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: 306

GTCTGACAAGGAATCCGGACATCAGAAGACCATTTCATCATTGTCAAAATCCCTAGATTGGTCACATTTTATTACTGGCTCCTTGGATAAATCTGCCAAGgttagaattt ... cgatgcatagCTATGGGATACAAGAACGCTGACCCTGATCAAGACATATGTCACAGAGAGACCTGTTAATGCTGTTGACATCTCTCCCACTCATGATACT

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 261

Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 246