ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATGGCCAACATGGTTACACAAGCAGAAAGAGAAGCAAAGGATTATATGGGCATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccccctgctgttctaatcagcttgtgatgtgtgcaattccatcactcttttttagaacattaaaataatctgaccacgttctaaaaacttttcccatgatactctctgtgtag

Basic information

species	Zea mays
transcript	GRMZM5G846198_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G846198_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g44510.1 (Oryza sativa), 5'ss of exon 12

ATGGCCAACATGGTTACACAAGCAGAAAGAGAAGCAAAGGATTATATGGGCATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccccctgctgttctaatcagcttgtgatgtgtgcaattccatcactcttttttagaacattaaaataatctgaccacgttctaaaaacttttcccatgatactctctgtgtag
||||||||||||||| ||||| ||||||||||||||  | |||||||||||||| |||||||| ||||| |||||||| ||||||||||||||||||||||||    |    || | |  | |||  |||||      | ||   ||||| ||  ||| ||    |   ||   |     |  |||  |  | | | || |  ||| ||| ||  |||||
ATGGCCAACATGGTTGCACAAACAGAAAGAGAAGCAGCGAATTATATGGGCATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctta-tgttatattcatc--cttgtag---attcatgaccatc-cttatttatacgttaactaagccacagttcatcgtgatggataatattactctgacactttccatgtag

upper sequence: GRMZM5G846198_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G20020.1 (Glycine max), 5'ss of exon 32

ATGGCCAACATGGTTACACAAGCAGAAAGAGAAGCAAAGGATTATATGGGCATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccccctgctgttcta-atcagcttgtgatgtgtgcaattccatcactcttttttagaacattaaaataatctgaccacgttctaaaaacttttc-----ccatgatactctctgtgtag---------------------------------
|||||| |||||||| || ||||||||||| |||||  | || || ||||||||||| || ||||| || |||||||| ||||| |||||  ||  ||||||| |       |  | ||||  ||||  |         |||  ||   |   ||| || |  |   ||||  | ||     ||| | |   | || |  |     | | ||| ||     || |                                  
ATGGCCTACATGGTTGCATAAGCAGAAAGAAAAGCAGCGAATAATTTGGGCATATAAAATTTTATTCCTTGATGTCATCTTTCCCCTTTCCTTGGAGAAGgtatcatgattttcttcttctgcatcaaatccc-----atgcttttattttgttctcttctgcactcttaatgtcatggtgtcacatgcaccacacatggcattgacaaggatgctggtaatgaaaagaaaatttttacttaaaaatttgtgtttgcag

upper sequence: GRMZM5G846198_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA05G30230.1 (Glycine max), 5'ss of exon 33

ATGGCCAACATGGTTACACAAGCAGAAAGAGAAGCAAAGGATTATATGGGCATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccccctgctgttctaatcagcttgtgatgtgtgcaattccatcactcttttttagaacattaaaataatctgaccacgttctaaaaacttttcccatgatactctctgtgtag
 ||||| |||||||| || ||||||||||| |||||  | || || ||||||||||| |||||||| || ||||||||||| || |||||  ||  ||||||| | |          |    ||||  ||   |||  |    ||   |  || ||    |    |||  |||  || ||| ||        |||| ||   ||| |             
GTGGCCCACATGGTTGCATAAGCAGAAAGAAAAGCAGCGAATAATTTGGGCATATAAAATCTTATTCCTAGATGTCATTTTCCCCCTTTCTTTGGAGAAGgtatcacagtttcttcttctgcatcaagtt-ccatgcttttggtttt-tgtcttttgcacaattaatttcaatg-tcagactacac------aactcttagaatgttgg-----------

upper sequence: GRMZM5G846198_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G13400.1 (Glycine max), 5'ss of exon 35

ATGGCCAACATGGTTACACAAGCAGAAAGAGAAGCAAAGGATTATATGGGCATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtacccc--ccccctgctgttcta-atca--------gcttgtgatgtgtgcaattc-catcactcttttttagaacat----taaaataatctgaccacgtt--ctaaaaact----tttcccatgatactctctgtgtag--------------------
 ||||| |||||||| || ||||||||||| |||||  | |  || ||||||||||| |||||||| || ||||||||||| || |||||  ||  ||||||||| |     | |  | ||||  ||||        |||| |  | | ||   ||  ||  | |  |||  |   ||      | |||  | |||| | | |    || || |    |  |  |    |   ||||| ||                     
GTGGCCCACATGGTTGCATAAGCAGAAAGAAAAGCAGCGAAGAATTTGGGCATATAAAATCTTATTCCTAGATGTCATTTTCCCCCTTTCTTTGGAGAAGgtaccacagtttcttcttcttctgcatcaagttccatgctttttgtttttgtcttttgcactattaatttcaatgtcacactacacaatgctgtgacaaagataatgaagaattaaaatcccttacaggaaaatctgtctaaaatctaccaatattatgcag

upper sequence: GRMZM5G846198_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv12s0034g02230.t01 (Vitis vinifera), 5'ss of exon 33

ATGGCCAACATGGTTACACAAGCAGAAAGAGAAGCAAAGGATTATATGGGCATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccccctg----ctgttctaat-cagcttg-tgatgtgtg-caattccatcactcttttttagaacattaaaataatctgaccacgt---tctaaaaacttttcccatgatactctctgtgtag
||||||||||||||| || ||||||||||| |||||  | ||||| ||||||||||| ||| | || || ||||| ||||| ||||||||  ||   ||||||               ||| |  ||   ||  || ||   |||  | ||| |||   |||| ||  |      ||  | |  ||      |   | |  | | | |  | |||    | ||||     
ATGGCCAACATGGTTGCATAAGCAGAAAGAAAAGCAGCGAATTATCTGGGCATATAAAATCCTGTTCCTTGATGTTATTTTCCCACTTTCTTTGGAAAAGgtaatttggtttcaagtcctgcttaaacatagagtgctgccttgtttccatttcattcatcttcttatgctttccaacttcacatgcatgtatagcttttcacaatctatcaatgtgtatatctgcag--

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|32930138|gb|CF034950.1|CF034950

EST:     CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAG                         GTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG
genomic: CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccc ... ctctgtgtagGTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG

EST: gi|32850563|gb|CD990244.1|CD990244

EST:     CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAG                         GTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG
genomic: CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccc ... ctctgtgtagGTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG

EST: gi|32834967|gb|CD974645.1|CD974645

EST:     CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAG                         GTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG
genomic: CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccc ... ctctgtgtagGTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG

EST: gi|32835266|gb|CD974944.1|CD974944

EST:     CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAG                         GTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG
genomic: CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccc ... ctctgtgtagGTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG

EST: gi|116823777|gb|EC867342.1|EC867342

EST:     CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAG                         GTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG
genomic: CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccc ... ctctgtgtagGTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG

EST: gi|32850558|gb|CD990239.1|CD990239

EST:     CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAG                         GTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG
genomic: CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccc ... ctctgtgtagGTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG

EST: gi|32850631|gb|CD990312.1|CD990312

EST:     CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAG                         GTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG
genomic: CATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccc ... ctctgtgtagGTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTG

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), 49 (downstream exon)
Score: 168

ATGGCCAACATGGTTACACAAGCAGAAAGAGAAGCAAAGGATTATATGGGCATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccc ... ctctgtgtagGTGATTTTTGTTGATGCTGATCAAATTGTGAGAGCAGACATGGGAGAATTGTATGACATGAACCTGAAGGGTCGCCCGCTTGCATATACTCCATTCTGTG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 118

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 163