ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtagttctcctgatccctgttatatgtaccagcttccattctgtatttgtactttgacattatgtatttgcattttaaagtttgaacacagtaactgtatgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGCCATCTTGACTATACACCTCATGCTTGGAACATTGTTCCTGTTAAAAAGA

Basic information

species	Zea mays
transcript	GRMZM2G155312_T02
intron #	4
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G155312_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g53250.1 (Oryza sativa), 3'ss of exon 2

gtagttctcctgatccctgttatatgtaccagcttccattctgtatttgtactttgacattatgtatttgcattttaaagtttgaacacagtaactgtatgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGCCATCTTGACTATACACCTCATGCTTGGAACATTGTTCCTGTTAAAAAGA
                                     | ||    |||   ||||| | | |  |  ||  || ||     || ||||  | |||  ||| |  ||||||| ||||| || || || || |||||||||||||||||||||||| |||| ||||||||||| |||||||||||||||||  |||||||||||| |||  
----------------------------------gtaactcctcgttt---ctttggcctgagctcattctatatttgctctttaacattgcaaccatatccactgcagTACTTGTGCGATCGAGCAGACCCTCCAATTCCTTGTGAGCTTGTGCGGGGGCATCTTGACTACACACCTCATGCTTGGAATGTTGTTCCTGTTAGAAAAG

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|211243385|gb|FL072665.1|FL072665

EST:     AGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAAG                         TATTTGTGTGACCGGGCGGATCCTCCAAT
genomic: AGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAA-Ggtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAAT

EST: gi|211243381|gb|FL072661.1|FL072661

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCG
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCG

EST: gi|211241145|gb|FL072646.1|FL072646

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211241148|gb|FL072649.1|FL072649

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211243384|gb|FL072664.1|FL072664

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211243382|gb|FL072662.1|FL072662

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211241144|gb|FL072645.1|FL072645

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCC

EST: gi|211241151|gb|FL072652.1|FL072652

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211241143|gb|FL072644.1|FL072644

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211241152|gb|FL072653.1|FL072653

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211241146|gb|FL072647.1|FL072647

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211241150|gb|FL072651.1|FL072651

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211241147|gb|FL072648.1|FL072648

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211243378|gb|FL072658.1|FL072658

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211243380|gb|FL072660.1|FL072660

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211241153|gb|FL072654.1|FL072654

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

EST: gi|211241154|gb|FL072655.1|FL072655

EST:     TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAACTGTCCTAATGAAG                         TATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC
genomic: TAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGC

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: 287

TAGATCAATACATCTCATCAAGGAAAGAAGAAATTCGGGTATTGTACCTATAGGTTCACTGCAATTAGGTGTTTGTAGGCACCGAGCTGTCCTAATGAAGgtagttctcc ... tgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGCCATCTTGACTATACACCTCATGCTTGGAACATTGTTCCTGTTAAAAAGA

Block sizes: 47 (upstream exon), 46 (downstream exon)
Score: 84

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 136

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 107

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tgacattatgtatttgcattttaaagtttgaacacagtaactgtatgctttgcagTATTTGTGTGACCGGGCGGATCCTCCAATTCCTTGTGAGCTTGTGAGGGGCCATCTTGACTATACACCTCATGCTTGGAACATTGTTCCTGTTAAAAAGA