ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCTAGCGCCAAGTCTTACCCCTTGGGAGCACTAATGGATGACTGCAAGAGTTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatgattctatctttttcaggagaaaatattactcatcgacagtactaacatggctagagtggatttcgtggccag

Basic information

species	Zea mays
transcript	GRMZM2G168412_T01
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G168412_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g74190.1 (Oryza sativa), 5'ss of exon 8

CCTAGCGCCAAGTCTTACCCCTTGGGAGCACTAATGGATGACTGCAAGAGTTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtat--------cagatgattctatctttttcaggagaa-aatatta---ctcatcgacagtactaacatggctagagtggatttcgtggccag
|| || || ||||| || |||||||  |||||||||||||||||||||| ||||||||| |||||||| || ||||||||||||||||||||||||||||||||            ||  || || |  || ||  ||| |||  ||   ||  |  ||   ||||||  | ||  | || ||| | |  ||||
CCAAGTGCAAAGTCATATCCCTTGGAGGCACTAATGGATGACTGCAAGAATTACTTCCTCGAAACTGGACGAAGGGTATCCTTCGAGTACACTCTGCTAGgtatgctcactatgcctggatccatgtgcttaagaggaataatgctaaagctgctttaccaaactaacgcgcctgaactgaattccct--ccag

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|91878765|gb|EB408722.1|EB408722

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|71766718|gb|DR964655.1|DR964655

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|88747606|gb|DY531747.1|DY531747

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTTTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTT
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|13149611|gb|BG319933.1|BG319933

EST:     TTACTRCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTK-TTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|78122643|gb|DV541027.1|DV541027

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|60345957|gb|DN212930.1|DN212930

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|71328602|gb|DR800966.1|DR800966

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|78118843|gb|DV537227.1|DV537227

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|76286139|gb|DV025707.1|DV025707

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|76015835|gb|DT943005.1|DT943005

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

EST: gi|78093019|gb|DV521393.1|DV521393

EST:     TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAG                         CTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC
genomic: TTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTC

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: 66

CCTAGCGCCAAGTCTTACCCCTTGGGAGCACTAATGGATGACTGCAAGAGTTACTTCCTTGAAACTGGGCGCAGGGTATCCTTCGAGTACACTCTGCTAGgtatcagatg ... tcgtggccagCTGGGATTAACGATGAAAAGGAGCATGCCGAAGAGCTAGCAGAACTACTTCGTATGTGTGGAGGTGGTTACCATGTGAACCTGATTCCCTATAACCCAAT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 239

Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 54