ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGTTGCCATCGTAGATGGTGGAGCCCTTCCAGGATTTATAAATTTGGTGAGGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatctgaaatttgacttgtcaaaagcgttcagccatatcttttgtctacttgcattttcatatcacctcaattcgaattcatttggcag

Basic information

species	Zea mays
transcript	GRMZM2G165692_T01
intron #	10
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G165692_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os01g06470.1 (Oryza sativa), 5'ss of exon 10

AGTTGCCATCGTAGATGGTGGAGCCCTTCCAGGATTTATAAATTTGGTGAGGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaa-------------------tctgaaatttgacttgtcaaaagcgttcagcc------------------atatcttttgtctactt-------gcattttcatatcacctcaattcgaattcatttg-gcag
||| || ||||||||||||||||||||||||||||||||| | ||||| ||||| || ||| |||| |  ||  | ||||| ||||||||||| |||||||| |||||                   |||    ||        |||  |  |||| |                   | || || ||| |  ||        |||||  || ||||   || | |||| |||||  ||||
AGTCGCTATCGTAGATGGTGGAGCCCTTCCAGGATTTATACACTTGGTCAGGTCTGCTGATGTAGATACCGCAGGGCTTGGTCTTCAGTTCCTAGAACTGgtgaggaaatctttaccatattagctatctctgtttcattcctccaacggtattcacctcacaagcagagttgctgaacatgttctgtttctttcttggatacatttggatctcactggaaattgaatacatttttgcag

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|78080887|gb|DV509299.1|DV509299

EST:     GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTG                         GTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG
genomic: GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG

EST: gi|211295564|gb|FL447040.1|FL447040

EST:     GGTCAGCCGATATAGAGAGCGCGAGACTTGGGCTTCAGTTCCTGGAACTG                         GTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG
genomic: GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG

EST: gi|116815561|gb|EC858241.1|EC858241

EST:     GGTCAGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTG                         GTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAAGCTCGTGGAGACAGA
genomic: GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAA-GCTCGTGGAGACAGA

EST: gi|149013735|gb|EE043193.2|EE043193

EST:     GGTCGGCCGATATAGAGAGTGGGAGACTTGGGCTTCAGTTCCTGGAACTG                         GTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG
genomic: GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG

EST: gi|86467944|gb|DY234314.1|DY234314

EST:     GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTG                         GTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG
genomic: GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG

EST: gi|33097676|gb|CF057636.1|CF057636

EST:     GTCAGCCGATATAGAGAGTGCGAGACTTGGGCTTCCAGTTCCTGGAACTG                         GTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG
genomic: GTCGGCCGATATAGAGAGTGCGAGACTTGGGCTT-CAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG

EST: gi|37394069|gb|CF634304.1|CF634304

EST:     GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTG                         GTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG
genomic: GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG

EST: gi|60395305|gb|DN228174.1|DN228174

EST:     GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTG                         GTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG
genomic: GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG

EST: gi|148969107|gb|EE019842.2|EE019842

EST:     GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTG                         GTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG
genomic: GGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAG

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), 47 (downstream exon)
Score: 39

AGTTGCCATCGTAGATGGTGGAGCCCTTCCAGGATTTATAAATTTGGTGAGGTCGGCCGATATAGAGAGTGCGAGACTTGGGCTTCAGTTCCTGGAACTGgtaaggaatc ... catttggcagGTGATGAGAGGATACCCTGACAGCCAGGGCCCAAAGCTCGTGGAGACAGAGGACGGCATTGAGGCCATGGAGAGGTTCCAGTTCCATGAGAACGAGATGA

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 133

Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 196