ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GAAGCTGAGCGCAAAATACCCCTCAATTATGCTTCTCGTTACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAGgtttcatactgaatatacttttatagttttatttgactcatgatgttacagacataggatcaagagatgcaggaatggaggggggagggggagggggagg...

Basic information

species	Zea mays
transcript	GRMZM5G809546_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G809546_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os08g15460.2 (Oryza sativa), 5'ss of exon 5

GAAGCTGAGCGCAAAATACCCCTCAATTATGCTTCTCGTTACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAGgtttcatactgaatatacttttatagttttatttgactcatgatgttacagacataggat-caagagatgca---ggaatggaggggggagggggagggggagg-
||||| ||| | ||||| || || |||||||||||||| ||||| ||||| | ||| |  || || |||||||||||| |||||||||||||||    |||    | | ||||   || ||||| |    |    || || | ||    | |||| | ||     |   |  ||     ||  |        |  
GAAGCCGAGAGGAAAATTCCGCTAAATTATGCTTCTCGATACAGTAGTCGGAGTGGAGGGCTCCAACGATCTGCATATCTACCATTTAAGgttt---gctgtgcttccattta--attctatttaatgtctatatttccatatattttgtgcaagggttgagtttgagcttcagcttttagttgatactctggat

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|71315712|gb|DR794487.1|DR794487

EST:     ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATA-TTACCATTTAAG                         GTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT
genomic: ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAGgtttcatact ... ttatgagcagGTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT

EST: gi|149099085|gb|EE185105.2|EE185105

EST:     AGCGATCTGCATATTTACCATTTAAG                         GTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT
genomic: AGCGATCTGCATATTTACCATTTAAGgtttcatact ... ttatgagcagGTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT

EST: gi|5901117|gb|AW042217.1|AW042217

EST:     ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAG                         GTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT
genomic: ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAGgtttcatact ... ttatgagcagGTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT

EST: gi|33093363|gb|CF053357.1|CF053357

EST:     ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAG                         GTCAACAGTTCTGGAGTCACGCCTATCATATTTTCTACATCTTCACTGGCT
genomic: ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAGgtttcatact ... ttatgagcagGTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT

EST: gi|149101790|gb|EE187903.2|EE187903

EST:     ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAG                         GTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT
genomic: ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAGgtttcatact ... ttatgagcagGTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT

EST: gi|71426546|gb|DR807596.1|DR807596

EST:     ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAG                         GTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT
genomic: ACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAGgtttcatact ... ttatgagcagGTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCT

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), 48 (downstream exon)
Score: 75

GAAGCTGAGCGCAAAATACCCCTCAATTATGCTTCTCGTTACAGCAGTCGAACTGGGGAACTTCAGCGATCTGCATATTTACCATTTAAGgtttcatact ... ttatgagcagGTCAACAGTTCTGGAGTCATGCCTATCATATTTTCTACATCTTCACTGGCTTTGCCTGGTACTTTGGCACGGTTTTCTGGCTTAGACTTTCTTAAGAAGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 220

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 54