ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGGAAATATCTGCTTTCTGAATGCAACTTTGCAGGCATTGCTTTCATGCTCGCCTTTTGTCCACCTTTTACAGGATCTGAGGAACCGTAGTATACCTAAGgtacttgtacctaatcaaattggtctgatgcaattttggcgcttatttgatttcctttcttctgaccatttctttcattttag

Basic information

species	Zea mays
transcript	GRMZM2G327635_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G327635_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g46660.1 (Oryza sativa), 5'ss of exon 2

AGGAAATATCTGCTTTCTGAATGCAACTTTGCAGGCATTGCTTTCATGCTCGCCTTTTGTCCACCTTTTACAGGATCTGAGGAACCGTAGTATACCTAAGgtacttgtacctaatcaaattggtctgatgcaattttggcgcttatttgatttcctttcttctgaccatttctttcattttag
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AGGAAATATATGCTTCCTGAATTCATCCTTGCAGGCATTGCTCTCATGCTGGCCTTTTGTCCAGCTTTTACAGAACTTGAGGAACCAGAATATACCTAAGgtgctgctatttaaacaattaagcttgatgttctaaccccgcttatttcaggctaatttttctgactacttgttgcattttag

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|71761034|gb|DR958971.1|DR958971

EST:     CGCCTTTTGTCCACCTTTTACAGGATCTGAGGAACCGTAGTATACCTAAG                         TTTGGCTACCCA-CTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT
genomic: CGCCTTTTGTCCACCTTTTACAGGATCTGAGGAACCGTAGTATACCTAAGgtacttgtac ... ttcattttagTTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT

EST: gi|32823188|gb|CD962910.1|CD962910

EST:     GATCTGAGGAACCGTAGTATACCTAAG                         TTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT
genomic: GATCTGAGGAACCGTAGTATACCTAAGgtacttgtac ... ttcattttagTTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT

EST: gi|18450808|gb|BM429086.1|BM429086

EST:     CGCCTTTTGTCCACCTTTTACAGGATCTGAGGAACCGTAGTATACCTAAG                         TTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT
genomic: CGCCTTTTGTCCACCTTTTACAGGATCTGAGGAACCGTAGTATACCTAAGgtacttgtac ... ttcattttagTTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT

EST: gi|87153575|gb|DY398364.1|DY398364

EST:     AGGATCTGAGGAACCGTAGTATACCTAAG                         TTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT
genomic: AGGATCTGAGGAACCGTAGTATACCTAAGgtacttgtac ... ttcattttagTTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT

EST: gi|211242520|gb|FL257377.1|FL257377

EST:     CGCCTTTTGTCCACCTTTTACAGGATCTGAGGAACCGTAGTATACCTAAG                         TTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCG
genomic: CGCCTTTTGTCCACCTTTTACAGGATCTGAGGAACCGTAGTATACCTAAGgtacttgtac ... ttcattttagTTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCG

EST: gi|32807933|gb|CD960167.1|CD960167

EST:     GATCTGAGGAACCGTACTATACCTAAG                         TTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT
genomic: GATCTGAGGAACCGTAGTATACCTAAGgtacttgtac ... ttcattttagTTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGAT

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), 49 (downstream exon)
Score: 222

AGGAAATATCTGCTTTCTGAATGCAACTTTGCAGGCATTGCTTTCATGCTCGCCTTTTGTCCACCTTTTACAGGATCTGAGGAACCGTAGTATACCTAAGgtacttgtac ... ttcattttagTTTGGCTACCCAACTCTGCGTGCATTTGTTGAGTTGATCTCTCAATTCGATGTGCTTGACGAGTCAGTTAACAAGAAAAAAGAGAAGGCTACTACTGTTG

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 60

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 76