ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTGGCTGGTCCGTTCCAGACACTGAGCTGCGCGAGTCACTAAGACTCGCGGTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgctctgactcctcgttacttgttgtaagcagtgaaagttaacgtactttgtgaaagattcctgcactgttccttgtggtttcacgttcatgctgcataaacattctgtttcttgatgatctgtag

Basic information

species	Zea mays
transcript	GRMZM2G074530_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G074530_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os04g58880.1 (Oryza sativa), 5'ss of exon 11

GTGGCTGGTCCGTTCCAGACACTGAGCTGCGCGAGTCACTAAGACTCGCGGTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgctctgactcctcgttacttgttgtaagcagtgaaagttaacgtactttgtgaaagattcctgcactgttccttgtggtttcacgttcatgctg-cataaacattctgtttcttgatgatctgtag
|||||||||| |||||||| || ||| |||| |||||||||||||| || || |||||||||||||||||||| ||| |||| ||| |||| || |||||||| | | || |||  | || |||| |||   ||  | |  |  |||| | |   ||   |||   | |  |||  |||||    |||    ||||  ||  | |   |||                      
GTGGCTGGTCTGTTCCAGATACGGAGTTGCGTGAGTCACTAAGACTTGCAGTTGCTGAAATCCTGTTGCCTGCATACAGATCTTTCCTAAAGCGCTTTGGgtatgtttctttgaaacttcattacatgt---aaataatata--ttaatgca---tggacaaggaccata-actaatccttt--attttctattcaaactctcctgctcat----------------------

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|71432760|gb|DR813810.1|DR813810

EST:     GTCGCTGAAATCCTGTTGCCTGCCTCCCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCCCCTGGGAAATACGTGAAGCCCACTCC
genomic: GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

EST: gi|211149050|gb|FK958467.1|FK958467

EST:     GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC
genomic: GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

EST: gi|32929635|gb|CF034447.1|CF034447

EST:     GTCGCTGAAATCCTGTTGTCTGCCTACCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC
genomic: GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

EST: gi|166445227|gb|EG293017.1|EG293017

EST:     CTGAAATCCTGTTGCCCTGCCTACCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC
genomic: CTGAAATCCTGTTG-CCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

EST: gi|33092047|gb|CF052041.1|CF052041

EST:     GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC
genomic: GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

EST: gi|5740705|gb|AI948395.1|AI948395

EST:     GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC
genomic: GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

EST: gi|211159123|gb|FL458119.1|FL458119

EST:     GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC
genomic: GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

EST: gi|33093183|gb|CF053177.1|CF053177

EST:     GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC
genomic: GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

EST: gi|211159122|gb|FL458118.1|FL458118

EST:     GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC
genomic: GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

EST: gi|32849856|gb|CD989537.1|CD989537

EST:     GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGG                         GCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC
genomic: GTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCC

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), 49 (downstream exon)
Score: 168

GTGGCTGGTCCGTTCCAGACACTGAGCTGCGCGAGTCACTAAGACTCGCGGTCGCTGAAATCCTGTTGCCTGCCTACCGATCATTCATAAAACGTTTTGGgtacgctgct ... tgatctgtagGCCTCTCATTGAGAATAGCAAAGCACCTGGGAAATACGTGAAGCACACTCCCGAGCAACTCGAGCTGCTGCTAGGCAATTTATTCGAGGGGAAACAAGAA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 196

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 328