ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATTCTTTAGCCGTTCACGGTCTTCCTTGTGGACGAAAGGGGAGACATCCATGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgttatgtgttgtgaataaatactttcacttcgatttctgagggtactaactgcacagagcttttgttttttgtgcaacttag

Basic information

species	Zea mays
transcript	GRMZM2G082214_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G082214_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g16940.1 (Oryza sativa), 5'ss of exon 2

ATTCTTTAGCCGTTCACGGTCTTCCTTGTGGACGAAAGGGGAGACATCCATGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgttatgtgttgtgaataaatactttcacttcgatttctga-gggtactaactgcacagagcttttgttttttgtgcaacttag
||||| |||||||||||||||||| |||||||| |||||||||||||| ||||| ||||| |||||||||||||||||| | |||||||||| ||| ||||||||| |  |   |||   || |   ||||||  ||||  |   |      | |||| ||    |    ||| |||||  || ||| |||
ATTCTATAGCCGTTCACGGTCTTCATTGTGGACAAAAGGGGAGACATCAATGAATTTCATCAATGTGCATGACATTTTCTTGGACTGTGACCGTGATTCTgtaagcct--tgcttgtcacga-tgcttacttttgcttcagtggatactaactgctaattgggttgtttgtttttttttcctgaaacatag

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|211369336|gb|FK959536.1|FK959536

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAA
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAA

EST: gi|211366679|gb|FK959524.1|FK959524

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGC-AGATGGAC
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGAC

EST: gi|32849363|gb|CD989044.1|CD989044

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA

EST: gi|32935051|gb|CF039863.1|CF039863

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGG
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGG

EST: gi|211366680|gb|FK959525.1|FK959525

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACNAG-AGCAGA
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATAC-AGGAGCAGA

EST: gi|78027709|gb|DV496096.1|DV496096

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA

EST: gi|148987058|gb|EE030883.2|EE030883

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA

EST: gi|20811241|gb|BQ295719.1|BQ295719

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA

EST: gi|61118955|gb|DN559916.1|DN559916

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACCCT                         ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA

EST: gi|26457028|gb|CA828611.1|CA828611

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGCCAGATGG
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGG

EST: gi|211366681|gb|FK959526.1|FK959526

EST:     TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA
genomic: TGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA

EST: gi|60349630|gb|DN216603.1|DN216603

EST:     ATGTGCATGACATTTTCCTAGACTGTGACCATGACTCT                         ATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA
genomic: ATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAA

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), 48 (downstream exon)
Score: 94

ATTCTTTAGCCGTTCACGGTCTTCCTTGTGGACGAAAGGGGAGACATCCATGAACTTCATTAATGTGCATGACATTTTCCTAGACTGTGACCATGACTCTgtaagcatgt ... tgcaacttagATAATATACCTTGGAAAGCCAGATGGACCTACCTGCCATACAGGAGCAGAAACGTGTTATTATACTTCAGTTTATGATGCTCTACAAAGTTCAAAG

Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 87

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 64