ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTCCGACTTTGCTCTTCGGTCATATTTGTACCTTTTCTTTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctctcttactcctttggtttcttcacatccttatatgctggctatccctttacctatttgtgcttactaatgatatctcacctattctgctgtgaag

Basic information

species	Zea mays
transcript	GRMZM2G051262_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G051262_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g11070.1 (Oryza sativa), 5'ss of exon 2

TTCCGACTTTGCTCTTCGGTCATATTTGTACCTTTTCTTTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctctcttactcctttggtttcttcacatccttatat--gctggctatccctttacctatttgtgcttac---taatgatatctcacctattctgctgtgaag------
|||| ||||||||||| | |||||| ||||||||||| |||| |||||||||||||||||||||||| |||| ||||| ||||||||||||||| || |  || || ||  ||||| |||| |  | | ||  |||   ||     ||||   |   | | |||   ||||  ||| | |  ||||||    |||        
TTCCAACTTTGCTCTTAGATCATATCTGTACCTTTTCATTCACGCTCTTGTAGCTGGGCCTGCTTCAATGATTTTTGGGGAGCATAAGgtttgtactgttctattcttt--gtttcctcaccttttaagatctgctaattaaattcttactagtcaatacctaccactaatcgtatttaatttattctttcatgattgttaag

upper sequence: GRMZM2G051262_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G34570.1 (Glycine max), 5'ss of exon 2

TTCCGACTTTGCTCTTCGGTCATATTTGTACCTTTTCTTTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctctcttactcctttggtttcttcacatccttatatgctggctatccctttacctatttgtgcttactaatgatatctcacctattctgctgtgaag
|||  | ||||||||||||||||||||||||||||| |||||||   | || | | | || ||||||| | | ||| ||||| | || ||  |   | || | ||    |   || || | ||  ||| |   | | |        | || ||  || |||| | ||        | | | |||||||    
TTCACAGTTTGCTCTTCGGTCATATTTGTACCTTTTATTTCATGAAATAGTGGGTCGACCAGCTTCATGGTTGTTTAGTGAGGACAAAgtaag---tttcctgctgtgcttacttgttga-attgttacagattagatg-------agcttttcatg-ttaccattgt-------cttttcctgctgtag--

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|28909967|gb|CB331189.1|CB331189

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GCTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|148995029|gb|EE034347.2|EE034347

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|211188227|gb|FK983678.1|FK983678

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|76281865|gb|DV021433.1|DV021433

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|211188228|gb|FK983679.1|FK983679

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|211188231|gb|FK983682.1|FK983682

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTTCTGGGTCTCATTTCAACTAT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTT-CTTGGTCTCATTTCAACTAT

EST: gi|74233286|gb|DT641200.1|DT641200

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|211188225|gb|FK983676.1|FK983676

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|71772097|gb|DR970034.1|DR970034

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|211188230|gb|FK983681.1|FK983681

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|211190621|gb|FK983684.1|FK983684

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|91054950|gb|EB165368.1|EB165368

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|149100385|gb|EE186457.2|EE186457

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

EST: gi|211190622|gb|FK983685.1|FK983685

EST:     TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAG                         GTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCA-CTATT
genomic: TTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATT

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), 48 (downstream exon)
Score: 200

TTCCGACTTTGCTCTTCGGTCATATTTGTACCTTTTCTTTCATGCTCTTGTAGCTGGGCCTGCTTCATTGATCTTTGGTGAGCATAAGgtttgtgctc ... tgctgtgaagGTTCGTGTGTTCTACTCAGTGAGAATCTTTCTTGGTCTCATTTCAACTATTACCGAAACTGTTCTGGTGGTTGCTCTTTCAAGAAGATATGGGAAGCGGC

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 97

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 107