ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtagcttccaaactattctttgcttactcgatatccacaggagtacataagtaatctggttttttaatgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATATGGTGCTCTGGCCCGAGGTGATGGCGCCATTTACTTGCGCTTTCCACACA

Basic information

species	Zea mays
transcript	GRMZM2G152757_T04
intron #	6
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G152757_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g08280.1 (Oryza sativa), 3'ss of exon 6

gtagcttccaaactattctttgcttactcgatatccacaggagt-acataagtaatctggttttttaatgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATATGGTGCTCTGGCCCGAGGTGATGGCGCCATTTACTTGCGCTTTCCACACA
||   | |  || |||||||||| || |  |  |||||  |||| || |  |||||||||| ||| ||||||  ||||||||||||||||||||||||||||||||||| || |||||||||||||| ||||| || ||||||||||| || |||||||||||||| ||||||||||
gtttgtcctgaattattctttgcctagtacaggtccacgagagttacttgggtaatctggtgtttgaatgctggcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATTGATAGCCAAGCAAAATACGGTGCCCTAGCCCGAGGTGACGGTGCCATTTACTTGCGTTTTCCACACA

upper sequence: GRMZM2G152757_T04 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA05G26250.1 (Glycine max), 3'ss of exon 6

-----------------------------------------gtagcttccaaactattcttt--gcttactcgatatccacaggagtacataagtaatctggttttttaatgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATATGGTGCTCTGGCCCGAGGTGATGGCGCCATTTACTTGCGCTTTCCACACA
                                          ||  ||   |  | ||| ||  |||   |     |  |   |   ||||   |   |   | ||        | ||||||||||||||| |||| || ||||| ||||| || ||||||||||||||||| ||| || |  |||| ||||| || || || ||||| || || ||||
gtagtactgtttctatagttaacacatttttccttattcatatatttttttagtttttcatttagctcttttagatttaatctgcagacatttcttgaccattattacttcatgaacagAAACTTGGTGTCAAAGCACCACCAGTCAGAATTGATAGCCAAGCAAAATATGGAGCTTTGTCAAGAGGAGATGGGGCTATATATTTGCGTTTCCCTCACA

upper sequence: GRMZM2G152757_T04 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA08G09180.1 (Glycine max), 3'ss of exon 6

---------------------------------------------gtagcttccaaactattctttgcttactcgatatccacag-gagtacataagtaatctggttttttaatgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATATGGTGCTCTGGCCCGAGGTGATGGCGCCATTTACTTGCGCTTTCCACACA
                                              |   ||  |   | |  |||   |  |  | ||  |    |   ||||   |   |   | ||        | |||||||| |||||| |||| || ||||| ||||| || ||||||||||||||||| ||| || |  |||| ||||| || || || ||||| || || ||||
gtaatactgttagaactagaagttaacatatttgtcctttttcatattttttttagtttttcttttagctcttttagatttattctgcagacatttcttgaccattattacttcatgaacagAAACTCGGTGTCAAAGCACCACCAGTCAGAATTGATAGCCAAGCAAAATATGGAGCTTTGTCAAGAGGAGATGGGGCTATATATTTGCGTTTCCCTCACA

upper sequence: GRMZM2G152757_T04 (Zea mays), 3'ss of exon 6
lower sequence: Vv04s0044g01480.t01 (Vitis vinifera), 3'ss of exon 6

gtagcttccaaactattctttgcttactcgatatccacaggagtacataagtaatctggttttttaatgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATATGGTGCTCTGGCCCGAGGTGATGGCGCCATTTACTTGCGCTTTCCACACA
     | |   | | | ||||||  ||    |||         |   | |     ||  || |||  ||  | ||||||||||| ||| |||| || ||||||||||| || ||||| || || ||||| |||||  || |||| ||||| ||||||||  | ||||| || || |
----gtactgtattgt-ctttgcagacgtcttattgttctctctgtcttatatgcctaattattttctg--aacagAAACTTGGAGTCAAAGCACCCCCAGTTAGAATTGATAGCCAGGCGAAGTATGGGGCTCTATCCAGAGGAGATGGGGCCATTTATCTTCGCTTCCCTCATA

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|32842118|gb|CD981799.1|CD981799

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|13316247|gb|BG410694.1|BG410694

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCA
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCA

EST: gi|89251071|gb|DY622857.1|DY622857

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|211300452|gb|FL250326.1|FL250326

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCTAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|78086723|gb|DV515116.1|DV515116

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|149071539|gb|EE159931.2|EE159931

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|211359777|gb|FL457484.1|FL457484

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|32841860|gb|CD981541.1|CD981541

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|78124912|gb|DV543296.1|DV543296

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|76016036|gb|DT943206.1|DT943206

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|32841437|gb|CD981118.1|CD981118

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|4572956|gb|AI586605.1|AI586605

EST:     TGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: TGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|211300453|gb|FL250327.1|FL250327

EST:     TATKAAAAGTTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: TAT-GAAAG-TGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|91053852|gb|EB164270.1|EB164270

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|32842117|gb|CD981798.1|CD981798

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGGTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|71757040|gb|DR954977.1|DR954977

EST:     GCACACTCCA-GCCATGATTTGACTGGCTCTATTGCAGAG                         AAAATTGGTGTCCAAGCTCCTCCAGTTAGAATTGACAGCCAAGCAAAATAT
genomic: GCACACTCCATG-CATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|32850770|gb|CD990451.1|CD990451

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|32841861|gb|CD981542.1|CD981542

EST:     CTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CTATGAAAGTGCACACTCCATGCATGATTTGACTGGCT-CTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|211300451|gb|FL250325.1|FL250325

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|32850780|gb|CD990461.1|CD990461

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

EST: gi|60339868|gb|DN206841.1|DN206841

EST:     CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAG                         AAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT
genomic: CCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATAT

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: 43 (upstream exon), 49 (downstream exon)
Score: 34

ATTAGTGTTTGCTCCATCGACAATCCTGTCAATGCATCATTTTTTGAATCCTATGAAAGTGCACACTCCATGCATGATTTGACTGGCTCTATTGCAGAGgtagcttcca ... atgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATATGGTGCTCTGGCCCGAGGTGATGGCGCCATTTACTTGCGCTTTCCACACA

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 191

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 106

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 82

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

gcttactcgatatccacaggagtacataagtaatctggttttttaatgctatcagAAACTTGGTGTCCAAGCTCCTCCAGTTAGAATCGACAGCCAAGCAAAATATGGTGCTCTGGCCCGAGGTGATGGCGCCATTTACTTGCGCTTTCCACACA