ERISdb: a Database of Plant Splice Sites

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

Sequence

atgc intronic sequence ATGC exonic sequence

gttcagttctaagataacttgccttccttattttttcaaatctctctatgtcacagcgtaagctttatatatttgatctctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATACTGGCTGGGCTTCTGTATCGCCTGAATACATTTGGCGTCCGTAGGTTGA

Basic information

species	Zea mays
transcript	GRMZM2G071739_T01
intron #	5
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G071739_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g59160.1 (Oryza sativa), 3'ss of exon 5

------gttcagttctaagataacttgccttccttattttttcaaatctctctatgtcacagcgtaagctttatatatttgatctctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATACTGGCTGGGCTTCTGTATCGCCTGAATACATTTGGCGTCCGTAGGTTGA
        | | ||| | |||||||| |  ||||  | || ||   || |    |       | |     |||| ||| |    ||  |  |||||| ||||||||||||||| | ||||| ||| | |||||||||||||| ||||||||||||||| ||||||| ||||||| ||||||| |||| |||||||
gtcaattctaacttccatgataactt-ctatcctcgtcttatctcttccccagttcctctgtcttgtagcttatgtatct----tcgattttcagCTACTTTTCTCATCTGGATGGCGTTCAATTATACCTGGACTTTCTGGTATACTGGCTGGGCTTTTGTATCGTCTGAATATATTTGGCATCCGCAGGTTGA

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|74244804|gb|DT652718.1|DT652718

EST:     TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

EST: gi|78089102|gb|DV517490.1|DV517490

EST:     TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

EST: gi|67012819|gb|CO441568.1|CO441568

EST:     TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

EST: gi|211299771|gb|FL443555.1|FL443555

EST:     GACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: GACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

EST: gi|101393185|gb|EB818523.1|EB818523

EST:     TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

EST: gi|71768532|gb|DR966469.1|DR966469

EST:     TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

EST: gi|101393183|gb|EB818522.1|EB818522

EST:     TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCTTCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

EST: gi|211039460|gb|FL157540.1|FL157540

EST:     TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

EST: gi|74244805|gb|DT652719.1|DT652719

EST:     TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

EST: gi|71768531|gb|DR966468.1|DR966468

EST:     TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAG                         CTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA
genomic: TTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATA

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: 41 (upstream exon), 48 (downstream exon)
Score: 50

TTATGTGCCATTCTTCTTTGACATTCCAATCTCAATGAAGTTTCGCATATTTGGACTGAGCTTCAGTGATAAGTCATTCGTATATTTGGCAGGACTCCAGgttcagttct ... ctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATACTGGCTGGGCTTCTGTATCGCCTGAATACATTTGGCGTCCGTAGGTTGA

Block sizes: 45 (upstream exon), 47 (downstream exon)
Score: 43

Block sizes: 45 (upstream exon), 48 (downstream exon)
Score: 47

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 76

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ttcaaatctctctatgtcacagcgtaagctttatatatttgatctctgtcatcagCTTCTTTTCTCATCTGGAAGACGTTCCATTGTGCCTGGACTTTCTGGCATACTGGCTGGGCTTCTGTATCGCCTGAATACATTTGGCGTCCGTAGGTTGA