ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AATGCAGCATGGATTCAGTGATGCCATTGCAAAAGTAGGCTTGACAAAGTTTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaatcacccgtttagcaattttagctggctttggcttgccacatgaagcctagtatttactgatctaccattttgttgaccaatgaatggtattgcag

Basic information

species	Zea mays
transcript	GRMZM2G070605_T01
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G070605_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os01g13770.3 (Oryza sativa), 5'ss of exon 8

AATGCAGCATGGATTCAGTGATGCCATTGCAAAAGTAGGCTTGACAAAGTTTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaatcacccgtttagcaattttagctggctttggcttgccacatgaagcctagtatttactga---tctaccattttgttgaccaatgaatggtattgcag--------------------------------------------------
| |||||||||| || |  ||||| |||||||||||||||||||||||||| |||  |||||| ||||| || |||||||||||||| || || |||||||||||  |  |  |  |    ||||    | |    |     |       ||   |  || || |||  |   |  |   || |||  || |||      | || ||                                                   
ATTGCAGCATGGTTTTAACGATGCAATTGCAAAAGTAGGCTTGACAAAGTTCGTTTCTGACCTTTTCTTCGTGGGACTGTTCTACCACCTCTATAACCAGgtaacccgtttt-catgccatgcaaaaccaccaaattcatcgtatttttgtgcttcacaggatgtacctaagtttcattcttatgtaaacaaattccaattttttcattgactacctttcatctactagaacatcactaatgcaatcatgtcatgcag

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|32941843|gb|CF046662.1|CF046662

EST:     TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTATAACCAG                         ATTGCTACAAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTCGGC
genomic: TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaa ... ggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC

EST: gi|211010423|gb|FL349731.1|FL349731

EST:     TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAG                         ATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC
genomic: TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaa ... ggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC

EST: gi|213168524|gb|FM182487.1|FM182487

EST:     TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAG                         ATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC
genomic: TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaa ... ggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC

EST: gi|91050012|gb|EB160430.1|EB160430

EST:     TGTTAGTGACCTATTCTTTGGT-GGACTGTTCTACCATCTGTACAACCAG                         ATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGG
genomic: TGTTAGTGACCTATTCTT-GGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaa ... ggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGG

EST: gi|32851134|gb|CD990815.1|CD990815

EST:     TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAG                         ATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC
genomic: TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaa ... ggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC

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: 45 (upstream exon), 43 (downstream exon)
Score: 31

AATGCAGCATGGATTCAGTGATGCCATTGCAAAAGTAGGCTTGACAAAGTTTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaa ... ggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGCAATGTGTTGAAGCGTGTGTTTGTCATTGGCTTCTCAATCGTTGTTTTTG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 777

Block sizes: 46 (upstream exon), 31 (downstream exon)
Score: 4