ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTCAAACCGAGAGAGCTGGGGAAGATGTTCTTCCTTGGGTGGAGCTAGTGATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAGgtacatttcttcagtgtgttactagacccttaagatttgaatgctagaaatctttgtgtttatttgctactccctatgttcaaaactatagttcacttta...

Basic information

species	Zea mays
transcript	GRMZM2G092895_T01
intron #	13
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G092895_T01 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os06g40730.1 (Oryza sativa), 5'ss of exon 13

CTCAAACCGAGAGAGCTGGGGAAGATGTTCTTCCTTGGGTGGAGCTAGTGATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAGgtacat-ttcttcagtgtgttacta--gacccttaagatttgaatg-ctagaaatctttgtgtttatttgctactccctatgttcaaaactatagttcacttta
 |||||||||||||||||||||||||||||||||||||| | ||| ||||||||||  ||   |||||| |  ||||| || |||| |||||||| |||||||  | |||||   | | | | |   ||     |    ||| ||| | | |      | | || ||  | ||   | ||  ||  | | | | ||| ||    
TTCAAACCGAGAGAGCTGGGGAAGATGTTCTTCCTTGGGGGCAGCGAGTGATGGATCATCCCTAGGCGAGCGCCCTGAAATTCCTAGTCATAAGCATAAGgtatgtcttctttcttttctcatttttgatgtccatctattgcatgaccatactgtccttttttcatagggtaa--cttaccttagatatttttgttaacac--

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|60401578|gb|DN234385.1|DN234385

EST:     ATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAG                         AGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAA
genomic: ATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAGgtacatttct ... caaactgtagAGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAA

EST: gi|60353869|gb|DN220842.1|DN220842

EST:     GATACCTAATCATAAGCTTAAG                         AGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAA
genomic: GATACCTAATCATAAGCTTAAGgtacatttct ... caaactgtagAGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAA

EST: gi|60353809|gb|DN220782.1|DN220782

EST:     ATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAG                         AGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAA
genomic: ATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAGgtacatttct ... caaactgtagAGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAA

EST: gi|67021426|gb|CO450175.1|CO450175

EST:     ATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAG                         AGCTTGACACTAAGGGCTCTAGCAACACCACTGAGACGGGTACGAAGGAAA
genomic: ATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAGgtacatttct ... caaactgtagAGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAA

EST: gi|30705048|gb|CD058654.1|CD058654

EST:     ATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAG                         AGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAA
genomic: ATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAGgtacatttct ... caaactgtagAGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAA

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: 106

CTCAAACCGAGAGAGCTGGGGAAGATGTTCTTCCTTGGGTGGAGCTAGTGATGGATTGTCATCAGGCGAACAGCCTGAGATACCTAATCATAAGCTTAAGgtacatttct ... caaactgtagAGCTTGACACTAAGGGCTCTAGCAACCCCACTGAGACGGGTACAAAGGAAACCTCTCGCGATCCCGAAGGAGAAGAATCGATCACTGTGGAAGAGGTTGA

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 70

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 50