ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CATCTTCTACAGATATCGAAACTCAGCAAGCTCATGAATTCTCTATTTATCTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggccttgagaaacacactagatctgtttaaatcagagttttgtttacctttttttctttggaaaaaaataatcatgacacctatgcatcag

Basic information

species	Zea mays
transcript	GRMZM2G137707_T01
intron #	6
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G137707_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os07g46640.1 (Oryza sativa), 5'ss of exon 6

CATCTTCTACAGATATCGAAACTCAGCAAGCTCATGAATTCTCTATTTATCTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggccttgagaaacacactagatctgtttaaatcagagttttgtttacctttttttctttggaaaaaaataatcatg-acacctatgcatcag
 ||||||||| || || ||| | || ||||| |||| |||||| |||||||||||| |||| ||| | |||| ||||||||||||||| || ||||||||||| || || || ||| ||  | | || | ||||||  | |   || |||  |||| ||||      ||| ||| |   || |    | || |||||
GATCTTCTACGGACATTGAAGCGCAACAAGCCCATGCATTCTCGATTTATCTTGTCCTGCCTTTCTTGACCACTTCATTAGCTTTGCTCGCATTTAACTGgtaaggaccatgggaagcatgc-acatttatttaaagaaaaaagttcttttgctttgtttc----agaaagaatgactttgtatgtgtgtgtatcag

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|67012698|gb|CO441447.1|CO441447

EST:     CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

EST: gi|71774748|gb|DR972626.1|DR972626

EST:     TTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: TTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

EST: gi|88747666|gb|DY531807.1|DY531807

EST:     CTTGTCTTGCCACTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

EST: gi|78108108|gb|DV526526.1|DV526526

EST:     CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

EST: gi|71442203|gb|DR823253.1|DR823253

EST:     GCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: GCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

EST: gi|33093800|gb|CF053794.1|CF053794

EST:     CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

EST: gi|14204187|gb|BG837864.1|BG837864

EST:     CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

EST: gi|91874804|gb|EB404761.1|EB404761

EST:     TTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

EST: gi|78122709|gb|DV541093.1|DV541093

EST:     CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

EST: gi|74232442|gb|DT640356.1|DT640356

EST:     CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTG                         GTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT
genomic: CTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAAT

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), 47 (downstream exon)
Score: 67

CATCTTCTACAGATATCGAAACTCAGCAAGCTCATGAATTCTCTATTTATCTTGTCTTGCCATTCCTAACCATTTCATTAGCTTTGCTAGCTTTTAACTGgtatgggcct ... tatgcatcagGTATCCCTCGATTGTTTTTGTTGGTGATACCTACACCTATTTTGCTGGAATGGCTTTGGCTGTGATAGGAATTTTGGGACATTTCAG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 42

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 66