ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtcagtgcggtgcccaagcgtcggagccttcgctgcgagatcctctcgttctattagcgattttgacgcgtgtgatcgcttgatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAACTGCATCTTCGTCTTCAAGTTCCGCACCCACTTCGGAGGCGGCAAGTCTA

Basic information

species	Zea mays
transcript	GRMZM2G091383_T01
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g36160.1 (Oryza sativa), 3'ss of exon 1

gtcagtgcggtgcccaagcgtcggagccttcgctgcgagatcctctcgttctattagcgattttgacgcgtgtgatcgcttg-atattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAACTGCATCTTCGTCTTCAAGTTCCGCACCCACTTCGGAGGCGGCAAGTCTA
    ||||| | |      |     |||  ||    |          |       |||||   |||  ||    || |   |  |  |||||||||| || ||||||| |||||| ||| ||||||||||||||||  |||||||||||||||| ||||||||||||||||||||||||||||||||||| |
----gtgcgtttcgtttagggtttcgcccgcgtgagggtgaggggagggggagagagcgaggctgatccgctgtattgtgcgcgttgtgcagGCGGATCTGAAGGAGAAGCTGGCGAAGCTGTACGAGGTGAAGGACTCCAACTGCATCTTCGTGTTCAAGTTCCGCACCCACTTCGGAGGCGGCAAGTCCA

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g13530.1 (Oryza sativa), 3'ss of exon 1

----gtcagtgcggtgcccaagcgtcgg-agccttcgctgcgagatcctctcgttctattagcgattttgacgcgtgtgatcgcttg---atat-tgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAACTGCATCTTCGTCTTCAAGTTCCGCACCCACTTCGGAGGCGGCAAGTCTA
    ||| | |   | | |   |  |||   || ||   || ||    || ||        | ||   | | ||||| |   || ||    | | |||||||||| || ||||||| |||||| ||| ||||||||||||||||  |||||||||||||||| |||||||||||||||||||||||||| |||||||| |
gtgcgtc-gcgtcctcctcctcctccggtgaccgtccgggctagggtttcccgccgccggcgtgaggctcatgcgtgcgtgtgcgtgtgcgtgtgtgcagGCGGATCTGAAGGAGAAGCTGGCGAAGCTGTACGAGGTGAAGGACTCCAACTGCATCTTCGTGTTCAAGTTCCGCACCCACTTCGGAGGAGGCAAGTCCA

upper sequence: GRMZM2G091383_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv14s0030g01620.t01 (Vitis vinifera), 3'ss of exon 2

--------------------------------------------gtcagtgcggtgcccaagcgtcggagccttcgctgcgagatcctctcgt-tctattagcgattttgacgcgtgtgatcgcttgatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAACTGCATCTTCGTCTTCAAGTTCCGCACCCACTTCGGAGGCGGCAAGTCTA
                                             |      |||      || |        |   || |   | || | ||  ||  |     || |   | |  ||||   ||| |  || |||| ||| | ||||| |  ||||| |  ||||| ||||||||||||||||| |  || || || ||||||||||| || ||||| ||||| || |||||||
gtaatctccgcaatctcccttcagtattttattatcatttgaaaatttcattggtctttgtgcttgtagtttatatttgtgcatttctatagtgcctgctctgtgttgtagagtgattgattatttgtttgtgaagGCTGAGTTGAAGGATAAACTGGCAAGCATGTATGAGGTGAAGGATCCCAATTCAATTTTTGTTTTCAAGTTCCGGACTCACTTTGGAGGTGGGAAGTCTA

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|211244227|gb|FL117664.1|FL117664

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCCGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|37399539|gb|CF637099.1|CF637099

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCCGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|60347596|gb|DN214569.1|DN214569

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|211316841|gb|FL135401.1|FL135401

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|211316839|gb|FL135399.1|FL135399

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|60353470|gb|DN220443.1|DN220443

EST:     AGCATTTCGTGCTTGAGGTTCTCCACCCGGGCCGCGCCAACGTCTGTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|211316838|gb|FL135398.1|FL135398

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|149102995|gb|EE288355.2|EE288355

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|113703592|gb|EE681096.1|EE681096

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCCGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|71775513|gb|DR973391.1|DR973391

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCA-C
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|60396565|gb|DN229434.1|DN229434

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|211318855|gb|FL135405.1|FL135405

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|29543354|gb|CB603750.1|CB603750

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|211244232|gb|FL117669.1|FL117669

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCCGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|211316842|gb|FL135402.1|FL135402

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|29945877|gb|CB815865.1|CB815865

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|29543674|gb|CB604054.1|CB604054

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|32913480|gb|CF018292.1|CF018292

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCCGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|71426587|gb|DR807637.1|DR807637

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|29946931|gb|CB816396.1|CB816396

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|211318854|gb|FL135404.1|FL135404

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTTAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|211244221|gb|FL117658.1|FL117658

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCCGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|60357475|gb|DN224448.1|DN224448

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|211316843|gb|FL135403.1|FL135403

EST:     AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

EST: gi|6827189|gb|AW330832.1|AW330832

EST:     AGCAGTTCGNGCTCGAGGGTCTCCACCCGGGCCGCGCCAACGTCTCTAAG                         GCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC
genomic: AGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAAC

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: 304

GGTGACGCTCCGCACGCGCAAGTTCATGACCAACCGCCTCCTCTCCCGCAAGCAGTTCGTGCTCGAGGTTCTCCACCCGGGCCGCGCCAACGTCTCTAAGgtcagtgcgg ... gatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAACTGCATCTTCGTCTTCAAGTTCCGCACCCACTTCGGAGGCGGCAAGTCTA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 322

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 191

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 294

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

gagatcctctcgttctattagcgattttgacgcgtgtgatcgcttgatattgcagGCGGAGCTCAAGGAGAGGCTGGCTAAGATGTACGAGGTGAAGGATCCCAACTGCATCTTCGTCTTCAAGTTCCGCACCCACTTCGGAGGCGGCAAGTCTA