ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtttgttcatgctacatgataagttctttcccacttaatgggcttgattttccaacttgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC

Basic information

species	Zea mays
transcript	GRMZM2G103812_T02
intron #	5
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g68770.1 (Oryza sativa), 3'ss of exon 5

--------------------gtttgttcatgctacatg-----ataagttctttcccacttaatgggcttgattttccaacttgcttacattcctattgc-tgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
                       ||||| |||||  |      ||||   | |        |||  | ||  || |  |   | ||||   |   ||  | ||   |  ||||||||||| ||| | |||||| |||| || ||||||||||||||||| |||||||||||| ||||||||||||| || |||||||| ||||| || ||||
gtttgtccataactccatgccaatgttcttgctattttcttgtataaagccctatttgtccaatttgtttagttgtttactctccttatgcttgcatgacatgacatgacagGTTGCTATATCTATAAAACCATTGAAAGTGCGCAACTGGATTCTGCCTGAAATGCCAGGACTGATAACTGATTTTGTTATCTCTCTGGATGATCGCTATC

upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G00590.1 (Glycine max), 3'ss of exon 5

----------------------gtttgttcatgctacatgataagttctttcccacttaatgggcttg-attttccaact-tgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
                       | | |||    |   | |  |  | |    ||   || | |  || || |  |||   | |||| |  | ||    |    ||||||||||| || || ||||||||| |||| || |  ||||||||||| || |||||||| ||  | |||||||||||  | || ||||||||||| || | ||
gtatatcaaaaggatatttaatatctattctgttttggtcagtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagac-taagcttacttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAAATGCCTGGGCTTATAACTGATTTTCTGATTTCTCTTGATGATCGGTTTC

upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA05G28400.1 (Glycine max), 3'ss of exon 5

------------gtttgttcatgctacatgataagttctttccca--cttaat--gggcttgattttccaacttgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
             |||  | | |     ||   |||  ||   ||   | ||    ||| | ||  || |   | ||||||  |      |||   ||||||||||| || || ||||||||| |||| || |  ||||||||||| || |||||||||||  | |||||||||||  | || ||||| ||||| || | ||
atattcatactcattttgtaaagtagtctggctagtgtttgtgcagcttcaaccaaggcataatgatcaataatacttacagactag--actgactttgcagGTTGCAATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCAGAAATGCCAGGGCTTATAACTGATTTTCTGATATCTCTCGATGATCGGTTTC

upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA11G36670.1 (Glycine max), 3'ss of exon 5

gtttgttcatgc-tacatgataagttctttcc-cacttaatgggcttgattttccaact-tgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
|| | |  | |  ||  | |||  |  |   |  |  || | |  |  || |  |||   | ||||||  |  |   ||    ||||||||||| || || |||||||||||||| || |  ||||||||||| || |||||||| ||  | |||||||||||  | || ||||||||||| || | ||
gtatatcaaaggatatttaatatctattcagcatatgtacttgtatatatatatcaatgatacttacagactaa--acttactttgcagGTTGCCATATCAGTGAAACCACTGAAAGTGCAAAACTGGATTCTTCCTGAAATGCCTGGGCTTATAACTGATTTTTTGATTTCTCTTGATGATCGGTTTC

upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G11400.1 (Glycine max), 3'ss of exon 5

------------gtttgttcatgctacatgataagttctttccca--cttaat--gggcttgattttccaacttgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
             |||  |  ||  |  || || |   ||   ||   | ||    ||  | ||  || |   | ||||||  |      |||   ||||||||||| || || ||||||||| |||| || |  ||||||||||| || |||||||| ||  | |||||||||||  | || ||||||||||| || | ||
atatccatactcattttgtattgtcatctggtatgcgtttgtgcagcttcaaccaaggtataatgatcaataatacttacacactag--actgactttgcagGTTGCAATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCAGAAATGCCTGGGCTTATAACTGATTTTCTGATATCTCTTGATGATCGGTTTC

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|6021033|gb|AW065961.1|AW065961

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|5895606|gb|AW036852.1|AW036852

EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|85151683|gb|DW587480.1|DW587480

EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|60344862|gb|DN211835.1|DN211835

EST:     ATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: ATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|38502601|gb|CF972461.1|CF972461

EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|83279371|gb|DV943379.1|DV943379

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|32801957|gb|CD954193.1|CD954193

EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATTGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|78076644|gb|DV505078.1|DV505078

EST:     GCAACATGGTGAGA-TTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|31355194|gb|CD439551.1|CD439551

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|18172411|gb|BM347799.1|BM347799

EST:     GCAACATGGTGAGATTTTT-AAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|31354133|gb|CD438490.1|CD438490

EST:     CAACATGGTGAGATTTTTTCA-GACCGCGGATGGATCGTGGAGCCATGAG                         GGTGCTATCTCTGTGAAACCACTGAAG
genomic: CAACATGGTGAGATTTTT-CAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAG

EST: gi|60355186|gb|DN222159.1|DN222159

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|32941574|gb|CF046393.1|CF046393

EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCTGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|31349415|gb|CD433772.1|CD433772

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|31360531|gb|CD444888.1|CD444888

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|6994143|gb|AW453357.1|AW453357

EST:     GCAACATGGTGAGATTTTCCAAGACCGCGGATGGATCGAGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|67021527|gb|CO450276.1|CO450276

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|31362486|gb|CD446843.1|CD446843

EST:     CGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGA
genomic: CGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTG-AAACCACTGAAGGTCCGCAACTGGATTCTGCCGGA

EST: gi|32796562|gb|CD948798.1|CD948798

EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|31355476|gb|CD439833.1|CD439833

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|31356060|gb|CD440417.1|CD440417

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|40334707|gb|CK368777.1|CK368777

EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|14701287|gb|BI233705.1|BI233705

EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|31348673|gb|CD433030.1|CD433030

EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|67031397|gb|CO460146.1|CO460146

EST:     CAACATGGTGAGATTTTTTCAGGGCCGCG-ATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAAC
genomic: CAACATGGTGAGATTTTT-CAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAAC

EST: gi|32865912|gb|CF005594.1|CF005594

EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA

EST: gi|149005327|gb|EE039878.2|EE039878

EST:     ATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         G-TGCTTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGA
genomic: ATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGC-TATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGA

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), 45 (downstream exon)
Score: 138

TTTACATGATCCATCAAAGGACACTGGCTATGTTGGCTGTGCTTTAACAAGCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 757

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 302

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 181

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

cacttaatgggcttgattttccaacttgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC