ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CACCTTGTTAAGTTGATTGGATATTGTATTGAGGATGATCAAAGGTTACTTGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatcacctaacagagttaatgctttaagttaagtagatttagtgcctttattactaatttgtttccccacttaggcctaaccagtttttttctt...

Basic information

species	Zea mays
transcript	GRMZM2G014596_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G014596_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os06g07230.1 (Oryza sativa), 5'ss of exon 3

CACCTTGTTAAGTTGATTGGATATTGTATTGAGGATGATCAAAGGTTACTTGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatcacctaacagagttaatgctttaagttaagtagatttagtgcctttattactaatttgtttc--cccacttaggcctaac--cagtttttttctt
|||||||||||| |||||||||| ||||| |||||||| |||||||| |||||||||||||||||||| ||||||||||||||||| |||||||||||||||||||||||       | |   |    || |     |    ||  | | | |  |||| || ||  |||     ||  || |  |  |  ||  |||||  ||
CACCTTGTTAAGCTGATTGGATACTGTATCGAGGATGACCAAAGGTTGCTTGTATATGAATTCATGGCCCGGGGAAGTCTTGAAAACCATCTTTTCAGAAgtaagcaatcttt----acaaccatcttttcagaagtaaacaatcaaatacatgcattagtatttctttttaattcaaataagattggcatcacatttttaatt

upper sequence: GRMZM2G014596_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv11s0016g05720.t01 (Vitis vinifera), 5'ss of exon 3

CACCTTGTTAAGTTGATTGGATATTGTATTGAGGATGATCAAAGGTTACTTGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatcacctaacagagttaatgctttaagttaag-tagatttagtgcctt-tattactaatttgtttccccacttaggcctaaccagtttttttctt
 | ||||||||  | ||||| || || ||||| ||||||||  |  | ||||| |||||||| ||| | || ||||| ||||||||||| |||||||||||| ||     ||         |    ||||    | | | |||| ||||||   | |  || | ||||  |         |    | | ||  |    |   
AATCTTGTTAAACTTATTGGGTACTGCATTGAAGATGATCAGCGACTGCTTGTTTATGAATTTATGACCCGTGGAAGCCTTGAAAATCACCTTTTCAGAAgtgagtttcgacactctctcctcttggcttatcatcatgatagaattagtgatatatggtatttattttataatttctgaaaatatgatcatctgccatg--

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|76014097|gb|DT941267.1|DT941267

EST:     TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAA                         GGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG
genomic: TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatc ... aatcttgaagGGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG

EST: gi|71445329|gb|DR826379.1|DR826379

EST:     TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAA                         GGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG
genomic: TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatc ... aatcttgaagGGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG

EST: gi|71772898|gb|DR970821.1|DR970821

EST:     TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAA                         GGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG
genomic: TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatc ... aatcttgaagGGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG

EST: gi|71773272|gb|DR971181.1|DR971181

EST:     TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAA                         GGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG
genomic: TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatc ... aatcttgaagGGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG

EST: gi|211399376|gb|FL450762.1|FL450762

EST:     TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAA                         GGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG
genomic: TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatc ... aatcttgaagGGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG

EST: gi|71426555|gb|DR807605.1|DR807605

EST:     TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAA                         GGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG
genomic: TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatc ... aatcttgaagGGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG

EST: gi|101392588|gb|EB818224.1|EB818224

EST:     TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAA                         GGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG
genomic: TGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatc ... aatcttgaagGGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCG

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), 46 (downstream exon)
Score: 163

CACCTTGTTAAGTTGATTGGATATTGTATTGAGGATGATCAAAGGTTACTTGTATATGAATTCATGGCACGGGGAAGTCTTGAAAATCATCTTTTCAGAAgtaagcaatc ... aatcttgaagGGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCGCGAAAGGAGTAGCCTTCCTCCATGGAGGTCCCAAACCTGTTATTTACAG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 257

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 307