ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCACTTGGGAAGAACTGGATGCAGGAGAGATGACCTTGAATCCCTTGCATACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttgattgattttatgacttttttgttgctacatgcactaatttcgttttgtaattcatgaatgaacttag

Basic information

species	Oryza sativa
transcript	LOC_Os01g10150.2
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G045259_T02 (Zea mays), 5'ss of exon 9

CCACTTGGGAAGAACTGGATGCAGGAGAGATGACCTTGAATCCCTTGCATACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttgattgattttatgacttttttgttgctacatgcactaatttcgttttgtaattcatgaatgaacttag------------------------------
||||||||||||||||||  | ||||||||||| ||||||||||| |||||||| |||||||| ||||||||||||||||| ||||||||||||| ||| |||| | | | ||||| || ||      || ||  |||    |||  |||  | || | ||| |   |   ||  |                               
CCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTCGCATACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAAgttagtgtag-ttgatgttctgctcacctttttcttactcctactctttttttgtttttatttaaatactcacaaattttttatctgttattcttcaatcaatttag

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA04G09080.1 (Glycine max), 5'ss of exon 9

CCACTTGGGAAGAACTGGATGCAGGAGAGATGACCTTGAATCCCTTGCATACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttgattgattttatgacttttttgttgcta-catgcactaatttcgtt-ttgtaattcatgaatgaacttag
|||  | || ||||| ||  |||||||||||||| | ||||| ||||| ||||| ||| | || ||||| ||||| || || ||||||||||||| |||||||| | ||  || |  |  | | |||  |  |  |   |      ||| |  || || | |||  |   |      ||
CCATCTTGGTAGAACAGGTAGCAGGAGAGATGACTTGGAATCTCTTGCTTACACTCTTGTCTTTCTTCTTCGTGGTCGGCTACCTTGGCAAGGATACCAGgttattattccttcaaatagtcattttagtactaatggtaaatgaaaatatgattcttatgatttttt--ttgttacag

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 9

CCACTTGGGAAGAACTGGATGCAGGAGAGATGACCTTGAATCCCTTGCATACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttgattgattttatgacttttttgttgctacatgcactaatttcgttttgtaattcatgaatgaacttag-----
 ||  | ||  |||| ||  |||||||||||||| | ||||| ||||| ||||| ||| | || ||||| ||||| || || |||||||||||||  ||||||| | ||| || |    ||     ||||  | |||  || |  |||     | ||    | |||||     ||       
TCATCTTGGTCGAACAGGTAGCAGGAGAGATGACTTGGAATCTCTTGCTTACACTCTTGTCTTTCTTCTTCGTGGTCGGCTACCTTGGCAAGGATATCAGgttattattgtttca---aatagtcattttagtactaattgta--aatgaaaatatgactcttatgaaactttttgttacag

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv09s0002g03680.t01 (Vitis vinifera), 5'ss of exon 9

CCACTTGGGAAGAACTGGATGCAGGAGAGATGACCTTGAATCCCTTGCATACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttgattgattttatgac----ttttttgttgctacatgcactaatttcgttttgtaattcatgaatgaacttag------------------------------------------------
 || ||||| ||||||||  | |||||||||||  | ||||| ||||| ||||| ||||||||||| |||||||| || || ||||||||||| |  ||||||   |    | ||  ||  ||     ||| ||  | ||        | |  |     |  ||||  |   |   |||                                                  
TCATTTGGGGAGAACTGGCAGTAGGAGAGATGATTTGGAATCTCTTGCTTACACTCTTATTTTCCTCCTCCGTGGTCGTCTACCTTGGCAAGGTTATCAGgttggctccattcgaagttccgataaaatttgttccttctcttcaatttgaagttccgataaaatttgttccttgtcttcctttcaagtttttgacttgatttttttgttcttaaaatcccatatatag

upper sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 5'ss of exon 9

CCACTTGGGAAGAACTGGATGCAGGAGAGATGACCTTGAATCCCTTGCATACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttgattgattttatgacttttttgttgctacatgcactaatttcgttttgtaattcatgaatgaacttag
 ||| | ||||| |||||| |||| ||||||||  | ||||| ||||| ||||| || ||||| ||||||||||| || |||||||||||||| | ||||||| |   |     |  |||       |||  |  ||  ||      |      || | |  ||  |      ||||
TCACCTTGGAAGGACTGGAAGCAGAAGAGATGATTTGGAATCTCTTGCTTACACCCTCATTTTTCTTCTCCGTGGACGGCTGCCTTGGCAAGGTTACCAGgttgacagtttccaaacttaaataggattttcttttatgtgattctgtacatcattctgaaccaacagcttctttag

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|58696276|gb|CK084963.1|CK084963

EST:     CACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGTGCAAGGATTCCAG                         TGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTCTCCA
genomic: CACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTG-GCAAGGATTCCAGgttaattttg ... atgaacttagGGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTCTCCA

EST: gi|88573975|gb|CI665744.1|CI665744

EST:     ACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAG                         GGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTC
genomic: ACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttg ... atgaacttagGGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTC

EST: gi|29645031|gb|CB650038.1|CB650038

EST:     ACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAG                         GGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTCTCCA
genomic: ACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttg ... atgaacttagGGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTCTCCA

EST: gi|29670785|gb|CB667060.1|CB667060

EST:     ACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAG                         GGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTCTCCA
genomic: ACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttg ... atgaacttagGGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTCTCCA

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: 60 (upstream exon), 73 (downstream exon)
Score: 37

CCACTTGGGAAGAACTGGATGCAGGAGAGATGACCTTGAATCCCTTGCATACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttg ... atgaacttagGGAGAGAATAAAGGTTTTCTTGTTTGCAAGAAAAAGATGGCAACCTCTCCAGAATCTTTATGTGGCATTGGTCCACCACCATTTCGTCAATTTGTTGAGT