ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GATCCTCGGCGCGCACACTCACGAGAAACGTTCCATGATCGTCGGCATCCTCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatccatcatctatccagtcgctctccctttaattttgctatgatggtacgtgatccgtcatctatccagtctctcatttgaacccgccgcgcc...

Basic information

species	Zea mays
transcript	GRMZM2G157675_T02
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G157675_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g42090.1 (Oryza sativa), 5'ss of exon 3

GATCCTCGGCGCGCACACTCACGAGAAACGTTCCATGATCGTCGGCATCCTCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatccatcatctatccagtcgctctccctttaattttgctatgatggtacgtgatccgtcatctatccagtctctcatttgaacccgccgcgcc----
| | ||  |||||||||| ||| |||| |||||||||||||||||||||||||||||| |||||||||| || ||||||  ||| || ||||| ||||||||||||   |   |   |   || |   ||||      ||      |   | |||   |   | | |||    |  ||| | | || | | || ||        
GCTTCTGAGCGCGCACACGCACAAGAAGCGTTCCATGATCGTCGGCATCCTCTGCGTCTTCTTCGGCTCCATCATGTACTTCTCCCCGCTCACCATCATGgtacgtacgcgtccgcatgatcattt--tctcatcacgatccaatcaaactagtagcagg--cataatcatctcgatctgttaattaatctcgtcgtttgatct

upper sequence: GRMZM2G157675_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g42110.1 (Oryza sativa), 5'ss of exon 3

GATCCTCGGCGCGCACACTCACGAGAAACGTTCCATGATCGTCGGCATCCTCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatccatcatctatccagtcgctctccctttaattttgctatgatggtacgtgatccgtcatctatccagtctctcatttgaacccgccgcgcc----
| | || ||||||||||| |||||||| || |||||||| ||||| |||||||||||| |||||||||| || ||||||  ||| || ||||||||||||||||||      || ||  | |  |    |   || ||  ||  | | |    ||||   |   |    ||| | ||   | ||    ||  |    | |    
GCTGCTGGGCGCGCACACCCACGAGAAGCGCTCCATGATTGTCGGTATCCTCTGCGTCTTCTTCGGCTCCATCATGTACTTCTCCCCTCTCACTATCATGgtacgta---tgtcctcctttcctttctcccatctgtatcttctccaagtaattacgaattttctttcttatactgttattaatgcccacg-gtaatgtcgtgg

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|211162570|gb|FL132729.1|FL132729

EST:     TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

EST: gi|211162573|gb|FL132732.1|FL132732

EST:     TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

EST: gi|211388914|gb|FL454573.1|FL454573

EST:     TCTGCGTCATCTTCGGCTCGATGATGTACGCYTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

EST: gi|28188247|gb|CB179857.1|CB179857

EST:     TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGGGGTACATGCCCTTTCCTCCCTG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAG-TACATGCCCTT-CCTCC-TG

EST: gi|211162572|gb|FL132731.1|FL132731

EST:     TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

EST: gi|38229508|gb|CF919821.1|CF919821

EST:     TCTGCGTCATCTTCGGCTCGATGACGTACGCCTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

EST: gi|28566554|gb|CB278202.1|CB278202

EST:     TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

EST: gi|17932131|gb|BM269091.1|BM269091

EST:     TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

EST: gi|28188031|gb|CB179641.1|CB179641

EST:     TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

EST: gi|211148276|gb|FL467068.1|FL467068

EST:     CTGCGTCATCTTCGGCTCGATGATGTACGCYTCACCACTYACCTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTC
genomic: CTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCA-CTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTC

EST: gi|7138105|gb|AW499432.1|AW499432

EST:     TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG
genomic: TCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

EST: gi|211124352|gb|FL444992.1|FL444992

EST:     GCTCGATGATGTACGCCTCACCACTVACTATCATG                         AGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTYG
genomic: GCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCG

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 2 RNA-Seq libraries.

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 5

GATCCTCGGCGCGCACACTCACGAGAAACGTTCCATGATCGTCGGCATCCTCTGCGTCATCTTCGGCTCGATGATGTACGCCTCACCACTCACTATCATGgtacgtgatc ... ttttgtgcagAGTCGAGTGATCAAGACCAAGAGCGTTGAGTACATGCCCTTCCTCCTGTCGCTGGTGAGCTTCCTCAACGGCTGCTGCTGGACGGCCTACGCGCTCATCC