ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGGGGCCGGTCAGATAGTAACATGGGTTACTGACCCAATGCATGGGAACACTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctcttttcttgctatcttatctccatgttgggctacttgcttgccttttttttttggtcaacactctgtattctttttgagtgaatagccacta...

Basic information

species	Zea mays
transcript	GRMZM5G828182_T02
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G828182_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os08g37790.1 (Oryza sativa), 5'ss of exon 4

TGGGGCCGGTCAGATAGTAACATGGGTTACTGACCCAATGCATGGGAACACTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctcttttcttgctatcttatctccatgttgggctacttgcttgccttttttttttggtcaacactctgtattctttt--tgagtgaatagccacta---
||| || || ||||||||||||||||||||||| || |||||||| ||||| |||||||| ||||| || ||||| || ||||| || || || || ||||||| ||   || | ||   |     || | | |  |  || |||||||    | ||  ||  |||    ||||||         |      |||    ||    
TGGTGCTGGCCAGATAGTAACATGGGTTACTGATCCGATGCATGGTAACACAATGAAGGCTCCTTGTGGCCTCAAGACTCGCTCCTTTGATAGAATCTTGgtaattcc--ttgcatggcctacagcctacttttcag--tatttgcttgttcctattacttc-tcagtggtctgtaactgagcaatagtcttatatttgctggac

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|61119679|gb|DN560640.1|DN560640

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCTTTCGATAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|211232751|gb|FL436022.1|FL436022

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|211368059|gb|FL471721.1|FL471721

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGATAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|211427348|gb|FL101761.1|FL101761

EST:     CTATGAAAGCCCCTTGCGGACTCAAAACCCGCTCGTTCGATAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGA-GGAAGCAACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|110941117|gb|EE161274.1|EE161274

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|78120449|gb|DV538833.1|DV538833

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|7162505|gb|AW520127.1|AW520127

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|91055056|gb|EB165474.1|EB165474

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|60396351|gb|DN229220.1|DN229220

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGATAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|78091973|gb|DV520347.1|DV520347

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|149082232|gb|EE171415.2|EE171415

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

EST: gi|211370702|gb|FL471722.1|FL471722

EST:     CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGATAGGATTTTG                         GGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT
genomic: CTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCT

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: 43 (upstream exon), 34 (downstream exon)
Score: 11

TGGGGCCGGTCAGATAGTAACATGGGTTACTGACCCAATGCATGGGAACACTATGAAGGCCCCTTGCGGACTCAAAACCCGCTCGTTCGACAGGATTTTGgtaactctct ... ttgaaaccagGGTGAGGTGCGTGCGTTCTTTGATGTCCACGAACAAGAAGGGAGCCACCCTGGAGGAGTGCATCTAGAGATGACTGGACAAAATGTTACAGAGTGCATCG

Block sizes: 42 (upstream exon), 49 (downstream exon)
Score: 28

Block sizes: 40 (upstream exon), 45 (downstream exon)
Score: 3