ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GTTAGAATTGCTCAGGGCCTTGTTCACCTCGGAAAGGGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcggtctctttgcacccattttcacttgtgaatgccaccgaattgcattagaacctttttttcttgttctgttttctcag

Basic information

species	Zea mays
transcript	GRMZM5G816609_T01
intron #	8
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G816609_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os02g05340.1 (Oryza sativa), 5'ss of exon 22

GTTAGAATTGCTCAGGGCCTTGTTCACCTCGGAAAGGGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcggtctctttgcacccattttcacttgtgaatgccaccgaattgcattagaacctttttttcttgttctgttttctcag
|| ||||||||||| || ||||||||||| || ||||| |||||||| || ||||| |||||||||||  | ||||| |||||||||||||| | |  ||  |   |   |  |  |||  | | |||   | |     ||||   | |   ||| |||||  | | |     
GTAAGAATTGCTCAAGGACTTGTTCACCTTGGGAAGGGTTTGTTGACTCTCTCTCCATACCATTCTGACCGGTTTCTACTTTCCCCgtgagtatag--ctagtgctatttacatctactgtttattgcattcaa----tattaatccttcaattttttgtttgggtgtag---

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|67025197|gb|CO453946.1|CO453946

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|87157733|gb|DY402522.1|DY402522

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|31361134|gb|CD445491.1|CD445491

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|78179098|gb|DV549471.1|DV549471

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|12046100|gb|BF728239.1|BF728239

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGTTGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|89763994|gb|DY690961.1|DY690961

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|67013648|gb|CO442397.1|CO442397

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|60348885|gb|DN215858.1|DN215858

EST:     TTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: TTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|6760600|gb|AW324699.1|AW324699

EST:     GGCTTGNTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|67041940|gb|CO468195.1|CO468195

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|71764383|gb|DR962320.1|DR962320

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAA

EST: gi|22819353|gb|BU499443.1|BU499443

EST:     GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCC                         GATGGCACTTGGAGGGCTTGTAACT
genomic: GGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACT

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: 218

GTTAGAATTGCTCAGGGCCTTGTTCACCTCGGAAAGGGCTTGTTGACCCTTTCTCCGTACCATTCTGATAGATTTCTTCTTTCCCCgtgagtgtcg ... gttttctcagGATGGCACTTGGAGGGCTTGTAACTGTTCTGCATGCGTGTCTTGATATGAAGTCCACTATCCTAGGGAAATATCACTACATACTTTACATTATTGTCCTG

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 148

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 168