ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtaaattcattatgaaaaaaataatcagcaccttccctaaaccaccttaggaagcactgtgttgggtagcaaattttgatgtttaatataaaactacatcagaatttacctatatcatatattgatatttcctttctttttcttttgttatttaagtctttcacctgttttgtctactataaatgaaatgtactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTAGTATTGGGATATGTCACAAGCATAGTTGTTGATCTTGCTATTCTTATTG

Basic information

species	Zea mays
transcript	GRMZM2G160927_T01
intron #	8
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G160927_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os08g34060.3 (Oryza sativa), 3'ss of exon 20

gtaaattcattatgaaaaaaataatcagcaccttccctaaaccaccttaggaagcactgtgttgggtagcaaattttgatgtttaatataaaactacatcagaatttacctatatcatatattgatatttcctttctttttcttttgttatttaagtctttcacctgttttgtctactataaatgaaatgtactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTAGTATTGGGATATGTCACAAGCATAGTTGTTGATCTTGCTATTCTTATTG
                                                                                      | | ||| |     | ||      ||     |||||| |||||   ||  ||||| |||    |   || || |     ||   |      || || | |||| |||||||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||||||  |||||||||||||| || | |||||||||||||||||||| ||||
------------------------------------------------------------------------------------tgttttaaattgggaaaaaaaccgagtac----tatatttatattatattaattttttttt----aaaaaaatcctcgg--tgacct------tacaagtaaaatttactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTAGTCCTGGGATATGTCACAGGCCTTGTTGTTGATCTTGCTATTCTAATTG

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|60397419|gb|DN230235.1|DN230235

EST:     TGGGCAAAGCACTAACGTGCAATTATCTTCACCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|211510092|gb|FL332408.1|FL332408

EST:     TGGGTAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCTGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|32839402|gb|CD979083.1|CD979083

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|37394737|gb|CF634645.1|CF634645

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCTGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|32837394|gb|CD977072.1|CD977072

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|71439002|gb|DR820052.1|DR820052

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|211119644|gb|FL444181.1|FL444181

EST:     TGGGTAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCTGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|60338548|gb|DN205521.1|DN205521

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|211043352|gb|FL434187.1|FL434187

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|33942624|gb|CF349224.1|CF349224

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCTGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|94476383|gb|EB705341.1|EB705341

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|8273067|gb|BE012162.1|BE012162

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGG-TCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|32935302|gb|CF040114.1|CF040114

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

EST: gi|32837391|gb|CD977069.1|CD977069

EST:     TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG                         ATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA
genomic: TGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTA

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: 282

GGTTATTGGATGGTTAAGCGTGCTGTAGGAACAAAAGCTTGCCTTCTGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAGgtaaattcat ... tactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTAGTATTGGGATATGTCACAAGCATAGTTGTTGATCTTGCTATTCTTATTG

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 156

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 205

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 176

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tgttatttaagtctttcacctgttttgtctactataaatgaaatgtactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTAGTATTGGGATATGTCACAAGCATAGTTGTTGATCTTGCTATTCTTATTG