ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

...gctgtgttaagtgcttttacctgtttagtatggtatgcatattcctttggcaggtttacttaatgtccaaaatttgatactagttttcctgtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA

Basic information

species	Zea mays
transcript	GRMZM2G132968_T02
intron #	2
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G132968_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g06750.1 (Oryza sativa), 3'ss of exon 2

gctgtgttaagtgcttttacctgtttagtat-ggtatgcatattcctttggc-aggtttacttaatgtccaaaatttgatactagttttcctgtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA
  | |  |   | |  |   ||  |  ||     | ||||    |  |||   | || |  |||   | | || | ||||| |   ||  ||||| ||||||||||||||||||||| |||||||  ||| || || ||||| |||||  ||||  | || ||||||||||| ||||| |||||||| |||||||| |||||
-tttttcttgttccagtcgtcttctcggtgccattttgcactgccagttgtttatgtgtgattacactaccaa-tctgatattttgttctctgttattgcagTGAAGTCATTCCCCAAGGATGACGTCAACAAACCATGCCACCTCACCTCCTTTGTCGGTTACAAGGCTGGAATGACCCACATTGTGCGTGAGGTCGAGAA

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|211202322|gb|FL411795.1|FL411795

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTCCCCAGGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCC
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCA-GGGATGACCCCAAGAAGCCTTGCCATCTCACTGCC

EST: gi|211506312|gb|FL378322.1|FL378322

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCYACCGCG-CAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211319300|gb|FL392936.1|FL392936

EST:     TCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCTAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCC
genomic: TCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGC-AAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCC

EST: gi|211154931|gb|FL392728.1|FL392728

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCG-CAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211455940|gb|FL376145.1|FL376145

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCG-CAAGG                         TGAAGTCATTCCCCAGGGATGACCCNAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|67021955|gb|CO450704.1|CO450704

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTCCCCA-GGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211060824|gb|FL422584.1|FL422584

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCG-CAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211431402|gb|FL392537.1|FL392537

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGNCAAGG                         TGAAGTCATTCCSCAGGGATGACCCCAARAAGCCTTGCCATCTCACTGMCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211111176|gb|FL402613.1|FL402613

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211294655|gb|FL395554.1|FL395554

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211498695|gb|FL368204.1|FL368204

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211198974|gb|FL379468.1|FL379468

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211078910|gb|FL369904.1|FL369904

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211144592|gb|FL403029.1|FL403029

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211180164|gb|FL404754.1|FL404754

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGC-GCAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|20301529|gb|BQ164472.1|BQ164472

EST:     CTCCTCCCGTCACCGCGGCAAGG                         TGAAGTCATTCCCTAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211473687|gb|FL374870.1|FL374870

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

EST: gi|211490786|gb|FL398948.1|FL398948

EST:     CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGG                         TGAAGTCATTTCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT
genomic: CTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCT

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: 48 (upstream exon), 49 (downstream exon)
Score: 574

GAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGAGGCACGGCTCCCTCGGCTTCCTTCCCAGGAAGCGCTCCTCCCGCCACCGCGGCAAGGgtacgcgcgc ... gtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 309

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 186

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 275

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tttggcaggtttacttaatgtccaaaatttgatactagttttcctgtttttgcagTGAAGTCATTCCCCAGGGATGACCCCAAGAAGCCTTGCCATCTCACTGCCTTCCTTGGCTACAAGGCTGGCATGACTCACATTGTCCGTGAGGTTGAGAA