ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

...atgctctaattttttgtgtgtatatgatattgtttgttgctcttcccttagtagtcagtatcatgctattttaagttaacttcgtagttgcttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGGGAATACTTGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATAT

Basic information

species	Zea mays
transcript	GRMZM2G075101_T03
intron #	5
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G075101_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g64920.1 (Oryza sativa), 3'ss of exon 6

atgctctaattttttgtgtgtatatgata-ttgtttgttgctcttcccttagtagtcagtatcatgctattttaagttaacttcgtagttgcttgtga-cagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGGGAATACTTGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATAT
               || ||    | | |      |    ||      |  ||||   ||   ||||||||| |   | |      | |||||  ||  |||||||| |||||||| |||||||||||||| ||||||||||| ||  |||||||| | |||||||| ||  | ||||| || ||||||||||| |  || |
---------------gtatgcgcttaacagccacataaaccttgatagtctgtagcatgttctatgctattt-acactgatggtacaattgctgttgctcagTATGACTATAATCCGAATGAAGACTATGCCGAGACAGAGTTAAAACTGAGGGAACATTTGCAATCGTTCCTAGAAACAGTAAAATCCTTCAATATGATCT

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|93012884|gb|EB638404.1|EB638404

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

EST: gi|37398489|gb|CF636559.1|CF636559

EST:     GGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: GGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

EST: gi|74246322|gb|DT654236.1|DT654236

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

EST: gi|93012885|gb|EB638405.1|EB638405

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCC
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCC

EST: gi|71761514|gb|DR959451.1|DR959451

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

EST: gi|6601609|gb|AW256155.1|AW256155

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

EST: gi|71773508|gb|DR971408.1|DR971408

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

EST: gi|76020456|gb|DT947626.1|DT947626

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

EST: gi|37388177|gb|CF631295.1|CF631295

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

EST: gi|31364678|gb|CD449033.1|CD449033

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

EST: gi|89250411|gb|DY622197.1|DY622197

EST:     CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAG                         TATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG
genomic: CCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGG

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: 47 (upstream exon), 47 (downstream exon)
Score: 95

GCCTGATATTGCTGAACTAGAGTTAAAGCTCTCGGAGTATACCAAAAAGATGTCTAATCTGCAGCAAATGGTTCAGGAGTTAGCATCGAAGgtataataga ... cttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGGGAATACTTGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATAT

Block sizes: 48 (upstream exon), 43 (downstream exon)
Score: 39

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 26

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 75

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ccttagtagtcagtatcatgctattttaagttaacttcgtagttgcttgtgacagTATGATTATAATCCAAATGAAGACTATGCGGAGACAGAGTTGAAGTTGAGGGAATACTTGCAATCATTTTTGGAAACGGTTAAATCCTTCAACACAATAT