ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtatgtattttcatgtggccaacacttccttctcaatagcttgattgtagtcttatattctcatttgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGCACCCATCTTGCATCAAACACATTCCTTGTTGGGCATTCAGTGACTCTCG

Basic information

species	Zea mays
transcript	GRMZM2G134582_T01
intron #	6
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G320497_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g12800.1 (Oryza sativa), 3'ss of exon 6

gtatgtattttcatgtggccaacact---tccttctcaatagcttgattgtagtcttatattctcatttgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGCACCCATCTTGCATCAAACACATTCCTTGTTGGGCATTCAGTGACTCTCG
||| ||||  ||| ||||  | |  |   | || ||   ||||    ||||  ||| || || |  | |||| |||||   || ||| || |||||||||| ||||||||| |||||||| | || | ||| || |||||||||||||||| ||||||||| |||||||||||||| |
gtaagtatggtcaagtgggtatcgttgtgttctccttgttagca-atttgtgatctaatcttgtt-tctgcctaacagAGTGAGGAAGCAGCTATTGCTGCTTTGAAGAGATCATTGGGTGCCCTCAACACACACCTTGCATCAAACACATACCTTGTTGGCCATTCAGTGACTCTTG

upper sequence: GRMZM2G320497_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g12794.3 (Oryza sativa), 3'ss of exon 5

gtatgtattttcatgtggccaacacttccttctcaatagcttga----ttgtagtcttatattctcatttgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGCACCCATCTTGCATCAAACACATTCCTTGTTGGGCATTCAGTGACTCTCG
||| ||||  ||| ||||    ||     || ||  |   |       |||| |||| || || |  | ||||||||||   || ||| || |||||||||| ||||||||| |||||||| | || | ||| || |||||||||||||||| ||||||||| ||||| |||||||| |
gtaagtatggtcaagtgggtgtcatagtgttttccttgtgtcagcaatttgttgtctaatcttatt-tctgcccaacagAGTGAGGAAGCAGCTATTGCTGCTTTGAAGAGATCATTGGGTGCCCTCAACACACACCTTGCATCAAACACATACCTTGTTGGCCATTCGGTGACTCTTG

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|32822954|gb|CD962663.1|CD962663

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCCTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|67025845|gb|CO454594.1|CO454594

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|211299931|gb|FL223399.1|FL223399

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTT
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTT

EST: gi|17930924|gb|BM267884.1|BM267884

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|32807664|gb|CD959898.1|CD959898

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|32793865|gb|CD946101.1|CD946101

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|31354444|gb|CD438801.1|CD438801

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCTATGATGGTGCG                         ATAGAAGAATCAGTTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|15209068|gb|BI430952.1|BI430952

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCTATGATGGTGCG                         ATAGAAGAATCAGTTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|50333934|gb|CO529060.1|CO529060

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|211269910|gb|FK986925.1|FK986925

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|211419500|gb|FK986935.1|FK986935

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTCCTGCC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCC

EST: gi|21891605|gb|BQ744818.1|BQ744818

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|32928966|gb|CF033778.1|CF033778

EST:     ACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: ACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|60398445|gb|DN231261.1|DN231261

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|13126413|gb|BG316983.1|BG316983

EST:     GGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: GGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|211512831|gb|FL354907.1|FL354907

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGA-GAATCAACTATTGCTGCCTTTGAAGAGAGCATTGGGTTCTCTGAG
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTT-GAAGAGAGCATTGGGTTCTCTGAG

EST: gi|31354453|gb|CD438810.1|CD438810

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCTATGATGGTGCG                         ATAGAAGAATCAGTTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|67020169|gb|CO448918.1|CO448918

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|32928540|gb|CF033352.1|CF033352

EST:     ACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: ACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|60399613|gb|DN232423.1|DN232423

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|6020992|gb|AW065920.1|AW065920

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTG                         GTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

EST: gi|14529440|gb|BI096573.1|BI096573

EST:     TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCTATGATGGTGCG                         ATAGAAGAATCAGTTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC
genomic: TTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGC

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), 45 (downstream exon)
Score: 190

CCATATTGAGCAATGGATTGACTTTGCTGCAACAGAGATTGATGCAAACATTGGAAAGTGGTTGTACCCACGGATGGGGTTTTATCCCCATGCTGGTGTGgtatgtattt ... tgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGCACCCATCTTGCATCAAACACATTCCTTGTTGGGCATTCAGTGACTCTCG

Block sizes: 49 (upstream exon), 45 (downstream exon)
Score: 167

Block sizes: 48 (upstream exon), 45 (downstream exon)
Score: 97

Block sizes: 48 (upstream exon), 45 (downstream exon)
Score: 234

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

aacacttccttctcaatagcttgattgtagtcttatattctcatttgcccaacagGTAGAAGAATCAACTATTGCTGCCTTGAAGAGAGCATTGGGTTCTCTGAGCACCCATCTTGCATCAAACACATTCCTTGTTGGGCATTCAGTGACTCTCG