ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTTAGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCATTGCAGGTTGAGTCAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactgtgaatataattgcattaagaattatttctttaacactgatatactgctaatgttatgtttcaagtgttcctaaccttataccatcatcat...

Basic information

species	Zea mays
transcript	GRMZM2G093643_T01
intron #	12
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 5'ss of exon 12

TTTAGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCATTGCAGGTTGAGTCAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactgtgaatataattgcattaagaattatttctttaacactgatatactgctaatgttatgtttcaagtgttccta---accttataccatcat-cat--
||| |||||||| || |||||||||||||| ||||| || ||||||||||| ||||| ||||| || ||||||||||||||||| ||||||||||||||||| || ||| ||||||||||  ||| |    || |||  |  |     ||   ||| ||    | || ||||| ||||  ||   |   |||| ||   | |||  
TTTGGCTGGTCTATTGCTAGCAGAAACAGAATTCTCCTTACAGGTTGAGTCGGATATTGCTCCTTACCGTGGTCTTCTGTTAGGTCTTTTCTTTATGACGgtaaggactctgaatataat--catcat---tttttttgtctatgtcaatgagctgataggagtttgcttcaa-tgtttatatggataatataacaatgtacatat

upper sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA18G46420.1 (Glycine max), 5'ss of exon 19

TTTAGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCATTGCAGGTTGAGTCAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactgtgaatataattgcattaagaattatttctttaacactgatatactgctaatgttatgtttcaagtgttcctaaccttataccatcatcat----------
 || |||||| |  |||| |||||||| || || || || |||||||| || ||||| ||||| |||||||| ||||| || || || ||||||||||||||  || | |   ||  || | ||  ||       |   ||||   |  | |  |  |  | | ||||  ||| | ||  ||   ||| |      | ||          
-TTGGCTGGTTTACTACTGGCAGAAACTGAATTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTGGCCTTCTTTTGGGGCTCTTCTTTATGACGGtaggtgccgaatatcaaaattcacaaa-------tctattaattgtattgttttatttgt-tcatgtgacaaatattttta-ttttaaattgcggttatggttgtgttg

upper sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA07G08030.1 (Glycine max), 5'ss of exon 11

TTTAGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCATTGCAGGTTGAGTCAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactgtgaatataattgcattaagaattatttctttaacactgatatactgctaatgt---tatgtttcaagtgttcctaaccttataccatcatcat
||| |||||| |  |||| |||||||| ||||| || || |||||||| || ||||| ||||| |||||||| |||||  | || || ||||||||||||||  || ||    ||  || | ||  |   |   |   | ||      || |||   |||  |   ||| ||| |    ||   ||   ||| |  |     |
TTTGGCTGGTTTACTACTGGCAGAAACTGAGTTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTGGCCTTCTACTGGGTCTCTTCTTTATGACGgtttgtgcttaatattcaaattcaaaagttaacttagttgtattgtatatttacatgtaacatatatatattttatactttgtcaa---tatgctgttcaatt

upper sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 12
lower sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 15

TTTAGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCATTGCAGGTTGAGTCAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactgtgaatataattgcattaaga-attatttctttaacactgatatactgctaatgttatgtttcaagtgttcctaaccttataccatcatcat
||| |||||| |  |||| |||||||| || || || || |||||||| || ||||| ||||| |||||||| ||||| || || || ||||||||||||||  || |||   ||  || | ||  ||   |||| || | |     | || |  |  | |  || | ||| || ||    ||   || |      ||   
TTTGGCTGGTTTACTACTGGCAGAAACTGAATTTTCCTTACAGGTTGAATCTGATATTGCTCCTTATCGTGGCCTTCTTTTGGGGCTCTTCTTTATGACGgtaggtgctgaatatcaaaattcacaaatttattaattgtattgt-tttatttgtttgtgacatttttttttaattgcggttatggttgtgttgctatttc

upper sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 12
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 11

TTTAGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCATTGCAGGTTGAGTCAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactgtgaatataattgcattaagaattatttctttaacactgatatactgctaatgttatgtttcaagt-gttcctaaccttataccatc-atcat-
||| ||||||||  |||| ||||| || || || || ||||| ||||| |||||||| ||||| || |||||||||||||| ||||| ||||| |||||||| | |  ||||||     |      || |  |  | |  |||   |  | |  | ||        ||   ||||  ||   ||    |||  |   |  || 
TTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatt--tgtgaactaggtcttgaaaatagctgat-cgataagtttactgttttccttggagatggtcagaagttattataaataggatattaaggaatata

upper sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 12
lower sequence: AT1G01790.1 (Arabidopsis thaliana), 5'ss of exon 12

TTTAGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCATTGCAGGTTGAGTCAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgt-----gagtactgtgaata-taattgcattaagaattatttctttaac-actgatatactgctaatgttatgtttcaagtgttcctaaccttataccatcatcat-----------------------------------------------------
||| ||||||||  | || ||||| ||||| || || ||||| || || |||||||| ||||| ||||||||||||||||| ||||| ||||| ||||||||     ||||    | |  | |  || |||     || ||||||  ||  | |||   |||    |||  |      |  | || ||    || ||  |  ||| |                                                     
TTTGGCTGGTCTACTCCTTGCAGAGACAGAATTTTCGTTGCAAGTAGAATCAGATATTGCTCCATATCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatatgagtttcctaataactttttccatagtttatcatttctgaaaagaatgaggaactatagatggaaaaggaaaccttttacttgtgttctagtaagatcctgatattgttgtcaactgtaagcaaactaacaaaaagagttccattgatttcag

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|78103566|gb|DV521994.1|DV521994

EST:     CAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACG                         GTTGGAATGTCTATTGACCCAAAGCTGCTTCTGTCAAACTTCCCAGCGATC
genomic: CAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactg ... ggttttccagGTTGGAATGTCTATTGACCCAAAGCTGCTTCTGTCAAACTTCCCAGCGATC

EST: gi|71325401|gb|DR799380.1|DR799380

EST:     CAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACG                         GTTGGAATGTCTATTGACCCAAAGCTGCTTCTGTCAAACTTCCCAGCGATC
genomic: CAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactg ... ggttttccagGTTGGAATGTCTATTGACCCAAAGCTGCTTCTGTCAAACTTCCCAGCGATC

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), 49 (downstream exon)
Score: 200

TTTAGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCATTGCAGGTTGAGTCAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactg ... ggttttccagGTTGGAATGTCTATTGACCCAAAGCTGCTTCTGTCAAACTTCCCAGCGATCTCTGTGATATTGAGTCTCTTGATAATTGGAAAGACATTGTTAGTTACAT

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

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 89