ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TCTGAGGCACCGGGACAATCCCAGTACAGGGATCGAGCTGCAGAAAGACGAAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAAgtaagaatacactttcatacgtttttattgcgtgcaattgctgtcattttcccatactgtccgtccagaatttaattttcttattctcatcattatcatt...

Basic information

species	Zea mays
transcript	GRMZM2G173777_T01
intron #	14
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G173777_T01 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os02g07070.1 (Oryza sativa), 5'ss of exon 15

TCTGAGGCACCGGGACAATCCCAGTACAGGGATCGAGCTGCAGAAAGACGAAATCTGTATGGATCATCT------CATGGCACTGATACTGTTGGATTGGATTCAAgtaagaatacactttcatacgtt-tttattgcgtgcaattgct-gtcattttcccatactgtccgtccagaatttaattttcttattctcatcattatcatt
      || || ||||| || |||||||| ||||| ||||||||||| |||||||| ||||||||||||      | ||| | ||||| || |||| ||||| ||||||||||| | ||  || || || |||  |     || ||| |   ||        |||| ||| |||| |   ||  ||| ||  | |||| |   |  ||
------GCTCCAGGACATTCACAGTACAGAGATCGGGCTGCAGAAAGGCGAAATCTATATGGATCATCTTCTTCACTTGGAAGTGATAATGATGGACTGGATCCAAgtaagaatgctctcacagacattattttctagcctcatttgtttagcacaagagtttactatccatccacagcatagctttttt--tgtcattacagtactt

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|211308369|gb|FL458197.1|FL458197

EST:     AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAA                         CTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCCGT
genomic: AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAAgtaagaatac ... tgttgtcaagCTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCCGT

EST: gi|33093013|gb|CF053007.1|CF053007

EST:     AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAA                         CTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCCGT
genomic: AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAAgtaagaatac ... tgttgtcaagCTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCCGT

EST: gi|71596082|gb|DR906833.1|DR906833

EST:     AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAA                         CTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCCGT
genomic: AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAAgtaagaatac ... tgttgtcaagCTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCCGT

EST: gi|211130865|gb|FL130501.1|FL130501

EST:     AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAA                         CTGGTGACTATCCGTCCCGAAAGGGT-CAAGTGAGATAGGGTCGATGCCCG
genomic: AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAAgtaagaatac ... tgttgtcaagCTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCC-G

EST: gi|211130864|gb|FL130500.1|FL130500

EST:     AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAA                         CTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCCGT
genomic: AAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAAgtaagaatac ... tgttgtcaagCTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCCGT

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: 84

TCTGAGGCACCGGGACAATCCCAGTACAGGGATCGAGCTGCAGAAAGACGAAATCTGTATGGATCATCTCATGGCACTGATACTGTTGGATTGGATTCAAgtaagaatac ... tgttgtcaagCTGGTGACTATCCGTCCCGAAAGGGTTCAAGTGAGATAGGGTCGATGCCGTTTCCTCCTGGTGTGGGTGAACGTTCCAGTGGTGAAATTGGCAACAGCGA

Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 35

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 79