ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AACATGTCAACTTCTGGAGTTGTGTTGGAGGATTTTGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACTCTGgtaagataatgcataaatctgatagcattgctcttgaaaatccttttgttagcatgtgacatatccttttttttctgcag

Basic information

species	Zea mays
transcript	GRMZM2G168337_T01
intron #	14
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G168337_T01 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os02g50360.1 (Oryza sativa), 5'ss of exon 14

AACATGTCAACTTCTGGAGTTGTGTTGGAGGATTTTGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACTCTGgtaag---ataatgcataaatctgatagcattgctcttgaaaatccttttgttagcatgtgacatatccttttttttctgcag
||    |||||| ||||| |||| |||||||||||||||||||| || || ||||||||||| || |||  | |||||  | ||||||||   |  ||||| | |||||||    |   |  |  ||| ||     | | | ||| |  | || ||||||| | |   
AATTCATCAACTCCTGGACTTGTCTTGGAGGATTTTGATTCCCAATTTTCTAATAGATTTTACCACAGCACTTTGGATGGCCCTGgtaagttcaccatgcagagatctgatgatttcttttgtagaaacccaggattaaacctgtaa--tgtcttttttttacag---

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|31351276|gb|CD435633.1|CD435633

EST:     TGATTCCCACTTCTCCAATACTTTTTATCATAGCTATCTGGATAACTCTG                         TAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT
genomic: TGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACTCTGgtaagataat ... ttttctgcagTAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT

EST: gi|6637083|gb|AW261355.1|AW261355

EST:     TGATTCTCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACCCTG                         TAAACATCAATTCCTCGTCAATAGCTGCAGCCGCTGCTTTGGTTGCCAGGT
genomic: TGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACTCTGgtaagataat ... ttttctgcagTAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT

EST: gi|61119794|gb|DN560755.1|DN560755

EST:     TGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACCCTG                         TNAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT
genomic: TGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACTCTGgtaagataat ... ttttctgcagTAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT

EST: gi|148963596|gb|EE014634.2|EE014634

EST:     TGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACTCTG                         TAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT
genomic: TGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACTCTGgtaagataat ... ttttctgcagTAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT

EST: gi|32862740|gb|CF002422.1|CF002422

EST:     TGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACCCTG                         TAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT
genomic: TGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACTCTGgtaagataat ... ttttctgcagTAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT

EST: gi|213168699|gb|FM182972.1|FM182972

EST:     ATTTTATCATAGCTATCTGGATAACCCTG                         TAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT
genomic: ATTTTATCATAGCTATCTGGATAACTCTGgtaagataat ... ttttctgcagTAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGT

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: 190

AACATGTCAACTTCTGGAGTTGTGTTGGAGGATTTTGATTCCCACTTCTCCAATAGATTTTATCATAGCTATCTGGATAACTCTGgtaagataat ... ttttctgcagTAAACATCAATTCCTCGTCAATAGCTGCAGCCGCCGCTTTGGTTGCGAGGTCGATGTATATTCTTGCTAGTGATGACTCAGTTGTTGACCTTATAACACT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 158

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 138