ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gtaagctgcattggtcctttgatcatagtgtatgatatatattaagtatgtcagatatttttactgactgaacatattgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG

Basic information

species	Oryza sativa
transcript	LOC_Os12g18110.1
intron #	6
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: LOC_Os12g18110.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G015869_T02 (Zea mays), 3'ss of exon 6

gtaagctgcattggtcctttgatcatagtgtatgatatatattaagtatgtcagatatttttactgactgaacatattgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG
|||||||||||| |||||| |||  || |     ||   | |  | |    ||||   |||| || |||||||| |||||| |||||| ||  | ||||| ||||||||||| ||||||||||||||||||||||||
gtaagctgcatttgtccttcgattttactccc--atggttttgtattgcaccagactgttttcctcactgaacaaattgtgatgcagATACTTTGGTGAATTTCTATGGAAACATTGGGAAAACCCTTCTTTCATTG

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|88275408|gb|CI395259.1|CI395259

EST:     AAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAAC                         ACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG
genomic: AAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAACgtaagctgca ... tgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG

EST: gi|38482937|gb|CF966739.1|CF966739

EST:     GGAGTGGGTGCTAAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAAC                         ACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG
genomic: GGAG-GGGTGCTAAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAACgtaagctgca ... tgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG

EST: gi|86887884|gb|CI297995.1|CI297995

EST:     AGGAGGGGTGCTAAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAAC                         ACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG
genomic: AGGAGGGGTGCTAAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAACgtaagctgca ... tgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG

EST: gi|88829632|gb|CI074502.1|CI074502

EST:     CAATCAATAGATCAAC                         ACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG
genomic: CAATCAATAGATCAACgtaagctgca ... tgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG

EST: gi|86865764|gb|CI335454.1|CI335454

EST:     TCAATAGATCAAC                         ACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG
genomic: TCAATAGATCAACgtaagctgca ... tgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG

EST: gi|88515837|gb|CI443491.1|CI443491

EST:     TAAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAAC                         ACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG
genomic: TAAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAACgtaagctgca ... tgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG

EST: gi|86833032|gb|CI333631.1|CI333631

EST:     AGGAGGGGTGCTAAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAAC                         ACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG
genomic: AGGAGGGGTGCTAAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAACgtaagctgca ... tgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG

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: 75 (upstream exon), 75 (downstream exon)
Score: 52

AGGAAGAGTACAATTGGTTGGAGTATTGGCAATATTTTACTTGATCTTACAGGAGGGGTGCTAAACTTTGGCCAGATGGGTGTGCAATCAATAGATCAACgtaagctgca ... tgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG

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atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tgatatatattaagtatgtcagatatttttactgactgaacatattgtgttgcagACACGCTAGTGAACTTCTATGGAAATATTGGGAAAACCCTTCTTTCATTG