ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGATGTCTACAGTTTTGGGGTTTTGGTACTCGAAATACTCAGTGGAAAGCGGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctgctcgattattttaattcttaaggcttgcatactttcttctatcgagttggagtaacctgaaaggatcatcttgtcttttggcag

Basic information

species	Zea mays
transcript	GRMZM5G886952_T01
intron #	13
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G886952_T01 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os03g16010.1 (Oryza sativa), 5'ss of exon 13

TGATGTCTACAGTTTTGGGGTTTTGGTACTCGAAATACTCAGTGGAAAGCGGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcc--------tgctcgattattttaattct------------taaggcttgcatactttcttctatcgagttggagtaacct-gaaaggatcatcttgtcttttggcag
||| |||||||||||||| |||||| |||| |||||||| || ||||| || |||||||||||||| || ||||| |||||| | |||||||||||||||||||||          ||  |    |||| |  ||             || |  || | || |  |||| || || ||   |||  || ||||  |||  ||||   | ||||||
TGACGTCTACAGTTTTGGAGTTTTGCTACTTGAAATACTAAGCGGAAAACGACCTACTGATGCATCATTTATTGAAAAGGGATTGAACATTGTTGGATGGgtatgtatgacctttatgtccttccatttcatatccacagttttctgatatgaattacgta-tgccttcaattgatttaatgtattcttgaaataatctacttgctctgtggcag

upper sequence: GRMZM5G886952_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA01G35390.1 (Glycine max), 5'ss of exon 12

TGATGTCTACAGTTTTGGGGTTTTGGTACTCGAAATACTCAGTGGAAAGCGGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctgctcgattattttaattcttaaggcttgc-atactttc-ttctatcgagttggagtaacctgaaaggatcatcttgtcttttggcag----
|||||| || || ||||| || |||  ||| ||| | || |||||||||||||| || || ||| | |||||||| ||||| || || |||||||| |||||||||| | | |    || ||   | |||      |  ||  | || |||||     |||   |      ||   |  || || | ||||   |     
TGATGTGTATAGCTTTGGTGTGTTGACACTTGAAGTGCTGAGTGGAAAGCGGCCAACAGACGCAGCATTCATTGAAAAGGGTCTCAATATTGTTGGTTGGgtatgtcattcacacaaatattggattttagtataagttatgatctcgttctagttttttgttttttaaataactaaatattttatattttaatataaac

upper sequence: GRMZM5G886952_T01 (Zea mays), 5'ss of exon 13
lower sequence: Vv02s0087g00170.t01 (Vitis vinifera), 5'ss of exon 13

TGATGTCTACAGTTTTGGGGTTTTGGTACTCGAAATACTCAGTGGAAAGCGGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcc---tgct-cgattattttaatt-cttaaggcttgcatactttct--tctatcgagttggagtaacctgaaaggatcatcttgtcttttggcag
 ||  | || |||||||||||| || | || ||| || |   ||| ||||| || |||||||| || |||||||| ||||| || ||||||||||| ||||||||||    ||||  | || ||   |||  || | ||||   ||| || |    | |    |  |  | |  |      | ||  || || |    || 
CGACATTTATAGTTTTGGGGTTCTGATGCTTGAAGTATTGGCTGGGAAGCGACCCACTGATGCTTCGTTCATTGAAAAGGGCCTCAACATTGTTGGCTGGgtatgtctccttgctatgcttgttaagattgttttaagcttatttaccttatatcttctttcatcaggatcatttccggtaaccaa-ttatcataattcac

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|31357285|gb|CD441642.1|CD441642

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACAAAAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|16379118|gb|BI992763.1|BI992763

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|18173823|gb|BM349211.1|BM349211

EST:     CCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: CCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|211113783|gb|FL295736.1|FL295736

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|211113784|gb|FL295737.1|FL295737

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|211243900|gb|FL441732.1|FL441732

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|16379121|gb|BI992765.1|BI992765

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|24767488|gb|CA402630.1|CA402630

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|166641634|gb|EG160045.1|EG160045

EST:     CTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTGGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: CTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|24763969|gb|CA399139.1|CA399139

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTGGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|60342589|gb|DN209562.1|DN209562

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|37395990|gb|CF635282.1|CF635282

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTGGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|60396674|gb|DN229542.1|DN229542

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|32939019|gb|CF043838.1|CF043838

EST:     GGCCTACTGATCCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|60348288|gb|DN215261.1|DN215261

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|13558837|gb|BG550192.1|BG550192

EST:     CATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGAACCTGAA
genomic: CATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCG-ACCTGAA

EST: gi|32915180|gb|CF019992.1|CF019992

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|16379017|gb|BI992725.1|BI992725

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

EST: gi|149109165|gb|EE293168.2|EE293168

EST:     GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGG                         TTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC
genomic: GGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAAC

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: 208

TGATGTCTACAGTTTTGGGGTTTTGGTACTCGAAATACTCAGTGGAAAGCGGCCTACTGATGCATCCTTCATTGAGAAGGGACTAAACATTGTTGGATGGgtatgtcctg ... cttttggcagTTAAATTTTCTTGCTAGTGAGAACCGGGAGAGGGAAATTGTCGACCTGAACTGTGAAGGAGTGCAGACTGAGACCTTAGATGCCCTGCTCTCTCTTGCCA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 150

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 55