ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAACGAGTATGGATGGGCAAGAAATTTTCTTATATCTATGAAGGCAGACCTAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctggcttcctgaaagagcatattcctgaactgaatccacacttaccgataatcctttttgtggtcacagctgaactattttccacttaattttgtgtccag

Basic information

species	Zea mays
transcript	GRMZM2G017584_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G017584_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os10g35130.1 (Oryza sativa), 5'ss of exon 3

AAACGAGTATGGATGGGCAAGAAATTTTCTTATATCTATGAAGGCAGACCTAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctggcttcctgaaagagcatattcctgaactgaatccacacttaccgataatcctttttgtggtcacagctgaactattttccacttaattttgtgtccag
||  || | |||||||  |||||||||||||||||||||||||| ||||||||||||||||| ||    ||||||||||| |||||| |||||||||||||||||  ||||||||||| ||           || |||||   || ||  ||  ||||||   ||||  ||||   |||| | ||||||   ||  |  | | | |||
AAGAGATTGTGGATGGCAAAGAAATTTTCTTATATCTATGAAGGAAGACCTAAGACAAACTCTGGCGCTTTCATGCAGTCGCTCTTTTTGCATTGTATTGgtagg--ctggcttcctggaaa--------tttgcactga---catacccacaaataatc---tttggagtcatttctgatcaattttcacttttttactat-tacag

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|71326301|gb|DR799839.1|DR799839

EST:     TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTG                         GTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT
genomic: TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctg ... ttgtgtccagGTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT

EST: gi|211059016|gb|FL008176.1|FL008176

EST:     TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGAATTG                         GTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT
genomic: TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctg ... ttgtgtccagGTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT

EST: gi|148954016|gb|EC899414.2|EC899414

EST:     TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTG                         GTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT
genomic: TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctg ... ttgtgtccagGTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT

EST: gi|86469976|gb|DY236346.1|DY236346

EST:     TAAGACAAACTCAGGTTTATTCATGCAGCCCCTCTTTCTGCATTGTATTG                         GTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGGTGGGCTATACT
genomic: TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctg ... ttgtgtccagGTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT

EST: gi|78116765|gb|DV535152.1|DV535152

EST:     TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTG                         GTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT
genomic: TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctg ... ttgtgtccagGTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT

EST: gi|30087147|gb|CB885355.1|CB885355

EST:     TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTG                         GTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATA
genomic: TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctg ... ttgtgtccagGTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATA

EST: gi|211059014|gb|FL008174.1|FL008174

EST:     TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTG                         GTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT
genomic: TAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctg ... ttgtgtccagGTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACT

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: 47 (upstream exon), 49 (downstream exon)
Score: 128

AAACGAGTATGGATGGGCAAGAAATTTTCTTATATCTATGAAGGCAGACCTAAGACAAACTCAGGTTTATTCATGCAGTCCCTCTTTCTGCATTGTATTGgtaggtgctg ... ttgtgtccagGTCATTTGACTTCTCAAAGTTCACTGCACCAAAGATTGGCTGGGCTATACTGCCTTTACTGTCTGTATGAGTGCCAGCCATACAAGCCGCAGTTCAAGAT

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 14

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 24