ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtagctttcttgatggtttgtgtgacgtgagtgtgcgtgtgcgacgacacgacgtacgtttaattggggtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCGGCGGTGGCGGTGAACCTGCGGACGGGCGGCACGGTGACGTTCCCGGGCA

Basic information

species	Zea mays
transcript	GRMZM2G126582_T01
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G126582_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g11560.2 (Oryza sativa), 3'ss of exon 1

-----------------gtagctttcttgatggtttgtgtgacgtgagtg--tg-cgtgtgcgacgacacgacgtacgtttaattggggtggtt--gcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCGGCGGTGGCGGTGAACCTGCGGACGGGCGGCACGGTGACGTTCCCGGGCA
                   ||  |  |||||  ||  | ||   |||     || | | || ||  |       |  | | ||      |||    |||| |  | ||||||   |||||||| | |||||| |||||||| ||||||||||||||||||||||||  | ||||||| |||||||||||||||||||| |
ttgctgtttgtaaaatcaaagtgtgtttgattcttattctgcgatgaacaattgtcatctgagattattgtggttttgataaacacaaatgggggggcagGTGATCGCGGAGATCTTGGGGACGTTCTTCCTCATCTTCGCGGGGTGCGCGGCGGTGGCGGTGAACAAGAGGACGGGAGGCACGGTGACGTTCCCGGGGA

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|211161927|gb|FL327732.1|FL327732

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

EST: gi|211488793|gb|FL317516.1|FL317516

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

EST: gi|211175561|gb|FL341464.1|FL341464

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

EST: gi|67016011|gb|CO444760.1|CO444760

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

EST: gi|211002494|gb|FL363322.1|FL363322

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGAGGCGTTGGGGACCTWCTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

EST: gi|211465337|gb|FL342131.1|FL342131

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

EST: gi|211459411|gb|FL313790.1|FL313790

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

EST: gi|211190771|gb|FL331720.1|FL331720

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

EST: gi|211465041|gb|FL331929.1|FL331929

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGAGGCGTTGGGGAC-TACTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

EST: gi|211541355|gb|FL357726.1|FL357726

EST:     AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         AACCTGGCGGAGGC
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGC

EST: gi|211157242|gb|FL334275.1|FL334275

EST:     AGGACGGANCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAG                         ATCCTGGCGGANGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG
genomic: AGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCG

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: 48 (upstream exon), 18 (downstream exon)
Score: 2

GGAAGGCAGAGGAGGCGGAGTCGATGGAGCGGGGTGTGAGAGCTCGGAGCAGGACGGAGCCGGTCGCCGCCCCATGTTCTCCGTGCCGTTCGTGCAGAAGgtagctttct ... gtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCGGCGGTGGCGGTGAACCTGCGGACGGGCGGCACGGTGACGTTCCCGGGCA

Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 54

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 32

Block sizes: 49 (upstream exon), 33 (downstream exon)
Score: 15

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

gacgtgagtgtgcgtgtgcgacgacacgacgtacgtttaattggggtggttgcagATCCTGGCGGAGGCGTTGGGGACCTACTTCCTGATCTTCGCCGGGTGCGCGGCGGTGGCGGTGAACCTGCGGACGGGCGGCACGGTGACGTTCCCGGGCA