ERISdb: a Database of Plant Splice Sites

General
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATAGAACGCACTCGTACTGGGTTGGAACCTTTGGTTATTGCTGCAATTCCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCAgtaagtattaattccttcatttgaattaaatgttagttattattgtgcttcagtatgaatgtgctcccattgccattggaacattttcaaaattatcatc...

Basic information

species	Zea mays
transcript	GRMZM2G068128_T01
intron #	2
splice site	5'
intron type	U2

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|71332492|gb|DR803210.1|DR803210

EST:     CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCA                         GTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT
genomic: CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCAgtaagtatta ... gttttaacagGTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT

EST: gi|71432992|gb|DR814042.1|DR814042

EST:     CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCA                         GTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT
genomic: CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCAgtaagtatta ... gttttaacagGTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT

EST: gi|93012463|gb|EB637983.1|EB637983

EST:     CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCA                         GTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT
genomic: CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCAgtaagtatta ... gttttaacagGTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT

EST: gi|71332494|gb|DR803211.1|DR803211

EST:     CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCA                         GTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT
genomic: CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCAgtaagtatta ... gttttaacagGTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT

EST: gi|71432993|gb|DR814043.1|DR814043

EST:     CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCA                         GTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT
genomic: CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCAgtaagtatta ... gttttaacagGTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT

EST: gi|149074931|gb|EE163387.2|EE163387

EST:     CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCA                         GTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT
genomic: CCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCAgtaagtatta ... gttttaacagGTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT

EST: gi|91876769|gb|EB406726.1|EB406726

EST:     CTCTAAAGACGATGTCCA                         GTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATATTACGAATCAT
genomic: CTCTAAAGACGATGTCCAgtaagtatta ... gttttaacagGTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCAT

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: 45 (upstream exon), 49 (downstream exon)
Score: 10

ATAGAACGCACTCGTACTGGGTTGGAACCTTTGGTTATTGCTGCAATTCCTACTATGAAGTACAATTGTGAGGCTTTCAACTCTAAAGACGATGTCCAgtaagtatta ... gttttaacagGTGCTCAATATGTTTAGGCGAATACAGGGAGAAAGAGATACTACGAATCATACCAACATGCCGCCACAGCTTTCACCTTGCCTGCTTAGATTTATGGTTG

Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 20

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 29

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 22

Data associated with selected splice site

Sequence

Basic information

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

RNA-Seq data