ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATGGCGAGAGTGGTTTTCAGAGCATAGTTATATCTCTGAAGGACAGTTTCTATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcgggtatgcattactgcacctgtcttatttcctgtgcgcatgcttaacacagtgattggatgtgcag

Basic information

species	Zea mays
transcript	GRMZM2G416069_T01
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G416069_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA13G18470.1 (Glycine max), 5'ss of exon 18

ATGGCGAGAGTGGTTTTCAGAGCATAGTTATATCTCTGAAGGACAGTTTCTATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcg---ggtatgcattactgcacctgtct--tatttcctgtgcgcatgcttaacacagtgattggatgtgcag-----------
|||| |  | |||||||||||| ||||| ||||| ||||| ||||  || |||||||| ||||| ||| | ||||| ||||| || ||||| ||| || ||||  |     | ||| ||||| |  |  |   |  ||| |     || |  ||| |    | |||   | | | |             
ATGGTGGAAATGGTTTTCAGAGTATAGTGATATCACTGAAAGACACCTTTTATGACAAAGCCGAAGCATTAGTTGGGGTTTACAGAGACTCTGAAAGAGGgtaaatttcttgatat-cattaattgatttaaatagtatgtttatggcactagctcagtgtattgacctggtttacttggaatttgcag

upper sequence: GRMZM2G416069_T02 (Zea mays), 5'ss of exon 9
lower sequence: AT3G54670.3 (Arabidopsis thaliana), 5'ss of exon 17

ATGGCGAGAGTGGTTTTCAGAGCATAGTTATATCTCTGAAGGACAGTTTCTATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcgggtatgcat-------tactgcacctgtct-tatttcctgtgcgcatgcttaacacagtgattggatgtgcag------------
| |  | || ||| || || ||||| || |||||||| |||||||| |||||||||||||| ||||| || ||||| ||||| || ||| | ||  | ||||| |  |  ||| ||        |  || || ||  | |||||  |  ||  |   |      | |  |||||  || |             
AGGATGGGAATGGCTTCCAAAGCATTGTAATATCTCTCAAGGACAGCTTCTATGACAAGGCGGAGGCTCTGGTTGGAGTTTACAGAGACACCGAGAGGAGgtaagcagaatatccacataaatcttttgtacatgcgtctattttattggcataatatctgagaactcgttggagatgtatttttggctgcag

upper sequence: GRMZM2G416069_T02 (Zea mays), 5'ss of exon 9
lower sequence: Vv07s0005g03440.t01 (Vitis vinifera), 5'ss of exon 12

ATGGCGAGAGTGGTTTTCAGAGCATAGTTATATCTCTGAAGGACAGTTTCTATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcgggtatgcattactgcacctgtcttat---ttcctgtgcgcatgcttaacacagtgattggatgtgcag------------------------------------------------------------
| || |  |||||||||||||| || || ||||| |||||||| || || ||||||||||| || || || ||||| ||||| |||||||| ||  |  |||| ||    |      || |  |  |   | ||   ||    |     ||||  ||    ||  | | | | |||                                                            
AGGGAGGCAGTGGTTTTCAGAGTATCGTGATATCACTGAAGGATAGCTTTTATGACAAGGCTGAAGCTCTGGTTGGGGTTTACAGGGACTCTGATAGGGGgtaagtttc-ttcatgatattatatttagttaatgcgttttcattttggtgct--actttctgggttgttttccagtatgtccaccaaattaacctgctaagcagagacaatgctaatacctatatttaattgcag

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|5713812|gb|AI943797.1|AI943797

EST:     TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGGAG                         TTGCTCGAGGACTCTCACCTTCGACATGAGAAAGTATAGGGAATCGTGAAG
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG

EST: gi|32856812|gb|CD996493.1|CD996493

EST:     TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAG                         TTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG

EST: gi|67019300|gb|CO448049.1|CO448049

EST:     TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGGAG                         TTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG

EST: gi|33092424|gb|CF052418.1|CF052418

EST:     TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAG                         TTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG

EST: gi|32857536|gb|CD997217.1|CD997217

EST:     TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAG                         TTGCTCG-GGTACNT-TCACCTTCGACCTGAGAAAGTATAGGGAATCGTGA
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGG-AC-TCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGA

EST: gi|32856527|gb|CD996208.1|CD996208

EST:     TATGACAAGGCCGAGACACTTGTTGGTGTTTATAGGGACTCAGAACGAAG                         TTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG

EST: gi|211099838|gb|FL388151.1|FL388151

EST:     TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAG                         TTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG

EST: gi|211416225|gb|FL415027.1|FL415027

EST:     TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAG                         TTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG

EST: gi|211099837|gb|FL388150.1|FL388150

EST:     TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAG                         TTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG

EST: gi|32932580|gb|CF037392.1|CF037392

EST:     AAGGCCGAGGCGCTTGTTGGTGTTTATAGGGACTCAGAACGAAG                         TTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG
genomic: AAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAG

EST: gi|166438907|gb|EG193297.1|EG193297

EST:     TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAG                         TTGCTCGAGGACTCTCACCTTCGACCTAAGAA
genomic: TATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAA

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: 47 (upstream exon), 49 (downstream exon)
Score: 401

ATGGCGAGAGTGGTTTTCAGAGCATAGTTATATCTCTGAAGGACAGTTTCTATGACAAGGCCGAGGCACTTGTTGGTGTTTATAGGGACTCAGAACGAAGgtaggtcggg ... ggatgtgcagTTGCTCGAGGACTCTCACCTTCGACCTGAGAAAGTATAGGGAATCGTGAAGCAGCTTTTGTTGAATGTTTGTACTATGTGTGTAGTTGCCTGCTCCATCA

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 179

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 279