ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGCCAGGCGGGGCAGGTGGTGTCGGTGCGCGTCTGCAGGGACGTCACCTCGCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgcgatctcctcgtggggcttcctttctatcttgttgattaagggtgggggattcgtcggcgtgtgggcattgttgaactggggcctgggggt...

Basic information

species	Zea mays
transcript	GRMZM2G352129_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G352129_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os04g42600.2 (Oryza sativa), 5'ss of exon 1

AGCCAGGCGGGGCAGGTGGTGTCGGTGCGCGTCTGCAGGGACGTCACCTCGCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgcgatctcctc-----gtggggcttcctttctatcttgttgattaagggtg-ggggattcgtcggcgtg-tgggcattgttgaactggggcctgggggt
|||||||||||||||||| ||||||||||||||||||||||| ||| |||||||||||||||||| ||||||||||||||||||||||||||| ||||||||||| | |||||||||||      | |  |  ||| |    ||  |  |||   | || | ||| |   |||  || | |  ||| |   | |  |||        
AGCCAGGCGGGGCAGGTGATGTCGGTGCGCGTCTGCAGGGACATCAGCTCGCGCCGCTCGCTCGGCTACGCCTACGTCAACTTCAACAACCCCGTGGATGgtata-tcgcgatctcctctcctcatcgccccccctatggccctattccatttctgctgcgcggactgcacggattgatcgctattttcacatttcggctg------

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|148964630|gb|EC905919.2|EC905919

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|148930466|gb|EE285000.2|EE285000

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|149111794|gb|EE190947.2|EE190947

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|78083519|gb|DV511912.1|DV511912

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|211492498|gb|FL350681.1|FL350681

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGC
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGC

EST: gi|30031639|gb|CB833490.1|CB833490

EST:     GCG-CGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|31354228|gb|CD438585.1|CD438585

EST:     GCGCCGCTCGCTCTGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|71437807|gb|DR818857.1|DR818857

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|30705721|gb|CD058894.1|CD058894

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|211106093|gb|FL230495.1|FL230495

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTA-CAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|211106096|gb|FL230498.1|FL230498

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACA-CAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

EST: gi|30307180|gb|CD001853.1|CD001853

EST:     GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATG                         CTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA
genomic: GCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTA

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: 290

AGCCAGGCGGGGCAGGTGGTGTCGGTGCGCGTCTGCAGGGACGTCACCTCGCGCCGCTCGCTCGGATACGCCTACGTCAACTTCAACAACCCCTTGGATGgtatagttgc ... catgttacagCTGCAAGGGCATTGGAAGTGCTGAACTTTGCTCCTCTTAACAACAAACCTATCCGGGTGATGTATTCAAACCGTGATCCAAGTAGCCGCAGGAGTGGATC

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 197

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 260