ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATGGCCTTTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgatgacatgctattagtcaacagtctattgtgatagctggtgttggggaactgggctgcttgatgctaactctcttctgttaatttggaggatttgtag

Basic information

species	Zea mays
transcript	GRMZM2G133959_T03
intron #	11
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G133959_T02 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os01g72870.1 (Oryza sativa), 5'ss of exon 13

TGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATGGCCTTTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgatgacatgctattagtcaacagtctattgtgatagctggtgttggggaactgggctgcttgatgctaactctcttctgttaatttggaggatttgtag
||||||||| ||||||| ||||||||| ||| || ||||| | || || ||| |||| | |||||| ||||||||||| || ||  | ||||| |||||||||||  ||| |  |||||||   ||| |  ||  | | ||   || |  |   || |  | |    |  |||| |   |    |||   |  | || |||   ||
TGAAGAACCGGACTGGAATTTCATCAGTGCAAAACAGGACCAGATTGCATTTCTGTTTGATGTGGACGATCACTGGGGTCCGCTTGCACACTTGGAAGAGgtgaacagatcatttgctatt--ccaaaa--ctgctcttattattg-tacttacgatcctgaccatct--tgcttatgttaacttgtcgctccg-agaattgacag

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|211416883|gb|FL440253.1|FL440253

EST:     TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAG                         ATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC
genomic: TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

EST: gi|12058307|gb|BF729165.2|BF729165

EST:     TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAG                         ATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGATAAA
genomic: TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

EST: gi|71445212|gb|DR826262.1|DR826262

EST:     TTTTGTTCGGTGTGGATGATCACTGGGGCCCCCTATCTCACTTAGAAGAG                         ATATCAAAGCACGCCCCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC
genomic: TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

EST: gi|113842859|gb|DW969810.1|DW969810

EST:     TCTCACTTAGAAGAG                         ATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC
genomic: TCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

EST: gi|78179633|gb|DV550006.1|DV550006

EST:     TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAG                         ATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC
genomic: TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

EST: gi|8383032|gb|BE055915.1|BE055915

EST:     TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAG                         ATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC
genomic: TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

EST: gi|78080386|gb|DV508798.1|DV508798

EST:     TTTTGTTCGGTGTGGATGATCACTGGGGCCCCCTATCTCACTTAGAAGAG                         ATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC
genomic: TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

EST: gi|76290046|gb|DV029614.1|DV029614

EST:     TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAG                         ATATCAAAGCACGCCCCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC
genomic: TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

EST: gi|71431548|gb|DR812598.1|DR812598

EST:     TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAG                         ATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC
genomic: TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

EST: gi|9954002|gb|BE640600.1|BE640600

EST:     TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAG                         ATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAACCAGAAGGTCAC
genomic: TTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCAC

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: 41 (upstream exon), 49 (downstream exon)
Score: 24

TGAAGAACCAGACTGGACTTTCATCAGAGCACAAGAGGACAAAATGGCCTTTTTGTTCGGTGTGGATGATCACTGGGGCCCACTATCTCACTTAGAAGAGgtgaagtgat ... ggatttgtagATATCAAAGCACGCACCAAGGGTCACCCTGTCGGTTGAAACAGAAGGTCACACACATGGTTACTGCTGTACAGAGGCTGGATCTGTCTGGGTTGCAGACT

Block sizes: 42 (upstream exon), 48 (downstream exon)
Score: 13

Block sizes: 41 (upstream exon), 45 (downstream exon)
Score: 20