ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gttgataaatttttcaaatccaaatgatattatttttgcatagaatttcccaacaagttctcaatttcggattgcagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCTTTATAGCTTTTGGTGATATTCTTGAGTTACATAAAAAATTCCTTGAACT

Basic information

species	Oryza sativa
transcript	LOC_Os01g73530.1
intron #	19
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: LOC_Os01g73530.1 (Oryza sativa), 3'ss of exon 19
lower sequence: GRMZM2G074241_T01 (Zea mays), 3'ss of exon 2

---------------------------------------------gttgataaatttttcaaatccaaatgatattatttttg-catagaatttcccaacaagttctcaatttcgga-ttgcagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCTTTATAGCTTTTGGTGATATTCTTGAGTTACATAAAAAATTCCTTGAACT
                                              |||  |    || ||  ||     | | ||  ||||| |||||| |||    |     ||    ||||||| || ||||||||||||||||||| ||  | ||||||||||||||||||||||||||||| ||||| ||||||||||||||||||||||| || || |||||||||||
gttggcattaatcttgaaagttccattattaaaaaaaaacaaaatcttggcagcgcttccatttctgtgcggtgttccttttggcatagagttt----atgctctcatgttttcggaattacagGAGAGTTGGCACATGCTCTGAGGTTCTTGGCATCTGTGGTGTCACAAAGCTTCATAGCGTTTGGTGATATTCTTGAGTTACACAAGAAGTTCCTTGAACT

upper sequence: LOC_Os01g73530.1 (Oryza sativa), 3'ss of exon 19
lower sequence: GLYMA08G14480.1 (Glycine max), 3'ss of exon 16

gtt-gataaatttttcaaatc--caaatgatattatttttgcatagaatttcccaacaagttctcaatttcggattg-cagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCTTTATAGCTTTTGGTGATATTCTTGAGTTACATAAAAAATTCCTTGAACT
||  ||||  |   |  ||||    | |    |||| |||   | |    || |  |       || |     | |   ||| ||| | |||||||||||  | || ||||||||||| || || ||||||||| ||||||| |||||||||||||| ||  ||||||| ||  | || ||
gtaagatatttccattgaatcatttactctctttatatttctcttgttgctctcctctctcagacagtactatactaatagGTGAGCTAGCACATGCACTGAGGTTTTTGGCATCTGTTGTTTCTCAAAGCTTTTTAGCTTTCGGTGATATTCTTGAATTGAATAAAAAGTTTGTAGAGCT

upper sequence: LOC_Os01g73530.1 (Oryza sativa), 3'ss of exon 19
lower sequence: GLYMA05G31270.1 (Glycine max), 3'ss of exon 18

gtt-gataaatttttcaaatc--caaatgatattatttttgcatagaatttcccaacaagttctcaatttcggattg-cagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCTTTATAGCTTTTGGTGATATTCTTGAGTTACATAAAAAATTCCTTGAACT
||  ||||  |   |  ||||    | |     ||||| |        | |||   |       ||||     | |   ||| ||| |||||||||||||  | || ||||||||||| || || ||||||||| ||||||| |||||||||||||| || |||| ||| ||  | |||||
gtaagatatttgcattgaatcatttactctctatatttctcttgttgctctcctctctcacagacaatactatactaatagGTGAGCTGGCACATGCACTGAGGTTTTTGGCATCTGTTGTTTCTCAAAGCTTTTTAGCTTTCGGTGATATTCTTGAATTGCATAGAAAGTTTGTAGAACT

upper sequence: LOC_Os01g73530.1 (Oryza sativa), 3'ss of exon 19
lower sequence: GLYMA11G38160.1 (Glycine max), 3'ss of exon 20

-----gttgataaatttttcaaatccaaatgatattatttttgcatagaatttcccaacaagttctcaatttcgga-ttgcagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCTTTATAGCTTTTGGTGATATTCTTGAGTTACATAAAAAATTCCTTGAACT
      ||| |  | | |||  |   |     | |        | |        |  |||     |  | | |    || |||| ||| ||||||||||| |  | ||||| |||||||| || || ||||||||| |||||||||| |||||||| || || || | ||| ||  | |||||
gtagaattgttggactgttctcagttactctctttatcaccctcttgccccccactgacatacgttgtactactatcttacagGTGAGCTGGCACATGCATTGAGGTTCTTAGCATCTGTTGTTTCTCAAAGCTTTTTAGCTTTTGGAGATATTCTAGAATTGCACAGAAAGTTTGTAGAACT

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|33796779|gb|CF324255.1|CF324255

EST:     GTTATATGCTTTGGAACACAAGGGGGACCGAGCTTTGACTTCAACTCAAG                         GAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCT
genomic: GTTATATGCTTTGGAACACAAGGGGGACCGAGCTTTGACTTCAACTCAAGgttgataaat ... cggattgcagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCT

EST: gi|8955961|gb|BE229765.1|BE229765

EST:     GTTATATGCTTTGGAACACAAGGGGGACCGAGCTTTGACTTCAACTCAAG                         GAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCT
genomic: GTTATATGCTTTGGAACACAAGGGGGACCGAGCTTTGACTTCAACTCAAGgttgataaat ... cggattgcagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCT

EST: gi|58679369|gb|CK068056.1|CK068056

EST:     GTTATATGCTTTGGAACACAAGGGGGACCGAGCTTTGACTTCAACTCAAG                         GAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCT
genomic: GTTATATGCTTTGGAACACAAGGGGGACCGAGCTTTGACTTCAACTCAAGgttgataaat ... cggattgcagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCT

EST: gi|58601488|gb|CK012016.1|CK012016

EST:     ACCGAGCTTTGACTTCAACTCAAG                         GAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCT
genomic: ACCGAGCTTTGACTTCAACTCAAGgttgataaat ... cggattgcagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCT

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 1 RNA-Seqlibrary.

Block sizes: 70 (upstream exon), 49 (downstream exon)
Score: 38

GATTTCGTGACGAAGCAGCTACCTCACAATGTGACATGGGGGCTTAGTTTGTTATATGCTTTGGAACACAAGGGGGACCGAGCTTTGACTTCAACTCAAGgttgataaat ... cggattgcagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCTTTATAGCTTTTGGTGATATTCTTGAGTTACATAAAAAATTCCTTGAACT

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atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

aatgatattatttttgcatagaatttcccaacaagttctcaatttcggattgcagGAGAGTTGGCACATGCACTTCGATTCTTGGCATCTGTGGTGTCACAAAGCTTTATAGCTTTTGGTGATATTCTTGAGTTACATAAAAAATTCCTTGAACT