ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCTCTCTCTCTCTCGTTTTCCCCCTCCCCTAGATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatccccgtgttcttggttcgccttgtttcagagatttgcaagccaggcagcttcaacgatagagtaggcaaccacgtttgttacatgagggtttgtgtatcttgtgtgaccag

Basic information

species	Zea mays
transcript	GRMZM2G019986_T02
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G019986_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os04g52370.2 (Oryza sativa), 5'ss of exon 12

CCTCTCTCTCTCTCGTTTTCCCCCTCCCCTAGATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatccccgtgttcttggttcgcct--tgtttcagagatttgcaagccaggcagcttcaacga--tagagtaggcaaccacgtttgttacatgagggtttgtgtatcttgtgtgaccag
                                || ||| |||| ||||||||| |||| || ||||| ||||| || |||||||| ||||||||||||  ||||||    |  |     |  |  | ||   |    ||  |||           |    |   | |  || |||||  | | |  ||      |||                          
--------------------------------ATTTGCTTGCATATGTTCACTTTGGATTTTTTGAATCAAGTAGCAAACAGCCTTGAGAAGGACAGTACgtgagtgcttctataactgttttaagtctgaagcagtaggaattcattgtgtttactttctttgcaaattacagtagttatctattttctcgttatgccc-----------------------

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|149102321|gb|EE287688.2|EE287688

EST:     ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT                         ATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

EST: gi|40303710|gb|CK348097.1|CK348097

EST:     ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT                         ATATCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

EST: gi|78089271|gb|DV517645.1|DV517645

EST:     ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT                         ATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

EST: gi|5124174|gb|AI745798.1|AI745798

EST:     ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT                         ATATCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

EST: gi|211288805|gb|FL433953.1|FL433953

EST:     CTCGAGAAGGACAGTGT                         ATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: CTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

EST: gi|16379775|gb|BI993142.1|BI993142

EST:     ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT                         ATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

EST: gi|149111355|gb|EE294858.2|EE294858

EST:     ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT                         ATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

EST: gi|110497708|gb|EE015394.1|EE015394

EST:     ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGGGT                         ATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

EST: gi|110214878|gb|EC896775.1|EC896775

EST:     ATTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT                         ATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

EST: gi|18166601|gb|BM336440.1|BM336440

EST:     ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGT                         ATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG
genomic: ACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGG

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: 48 (upstream exon), 49 (downstream exon)
Score: 100

CCTCTCTCTCTCTCGTTTTCCCCCTCCCCTAGATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCGAACAGCCTCGAGAAGGACAGTGTgtgagtatcc ... gtgtgaccagATACCATCTAGCTGAGAAGAAGATCCCTTCCATCCATGGGTTCACAACGGGCCTGAAGCTGGAACAGTTTATATTCGACGCCTTCACTTACTCCCCATCC

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 100

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 102