ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAGgttcgtctgttacaatctcaatatttgtcatttgctgacatgaaattacaatttgtaccattctggcaatagtagttttgggagcagcattttattatca...

Basic information

species	Zea mays
transcript	GRMZM2G151549_T02
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G151549_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA02G33770.1 (Glycine max), 5'ss of exon 4

AGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAGgttcgtctgttacaatctc-------aatatttgtcatttgctgacatgaaattacaatttgtaccattctggcaatagtagttttgggagcag-cattttattatca------------------------------------------------------
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AGGTGCAAAGCAGAATATGGCTGATGCATTGGAGTCTGTTCATCTTTTTTAATCATGACAATGGGAGAACACAAATAATTGATCTGTTCAATCAGGACAAgtatgcct-ttactctcttttcctaggatacctgagattatttg-taggatatttcacatgctttacttttactgttaatccttgtcaaactggtcaatttctctccctctctctagtgtcggcttgttgttgcatcatctaatatatggtttaatttttag

upper sequence: GRMZM2G151549_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA10G16090.1 (Glycine max), 5'ss of exon 4

AGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAGgttcgtct----gttacaatctcaatatttgtcatttgctgacatgaaattacaatttgtaccattctggcaatagtag--------ttttgggagcagcattttattatca------------------------------------------------------------
|| | || | ||| ||||||||||||||||||  |||||||||||| ||||| ||||| ||||| ||||     || ||||||||||||   ||||||| ||  | ||      | |  ||| |  || | |||  ||||    |   |||   |||  |  | |  |   | | ||           | |    |   |  |||||| |                                                              
AGGTGCAAAGCAGAATATGGCTGATGCATTGGAGTCTGTTCATCTTTTTTAATCATGACAATGGGAGAACACAAATAATTGATCTGTTCAATCAGGACAAgtatgccttaccaatcctttcttaggatatttcacatgctttacttttattgttattcttgtcctcgtcaaactggtcaactgcttcctctctttgggtcgctttattgttgcatcttctaggcttagtatttgtaatgctgcttcatctatagatatgatgtaattttcag

upper sequence: GRMZM2G151549_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT3G57290.1 (Arabidopsis thaliana), 5'ss of exon 4

AGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAGgttcgtctgttacaatct-caatatttgtcatttgctgaca--tgaaattacaatttgtaccattctggcaatagtagttttgggagcagcattttattatca
|| | ||||||||||| ||| |||||||||||| |||||  ||||| ||||||||||| ||||| || |    |||||||||||| ||   ||| |||| ||  | || |  |  |||   || |   ||  ||  | | |  |   || || || | |  | ||  |    ||  |       || |   ||   || |   
AGGTGCAGAACAGGATTTGGTTGATGCATTGGGGTCTGTATATCTTTTTTAACCATGATAATGGAAGGACACAGATCATTGATCTTTTTAACCAAGACAAgtaagcctctacctctctgttatctgcatctcttctttatacctttcatcaccatctatttccttgcgttt-taagataagcatgatctagatgcgatgaa--

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|148947189|gb|EC892527.2|EC892527

EST:     AACCATGAAAATGGTAGAAATGAGATCATTGATCTGTTCTTCCAGGACAG                         GTACTTGAATGCTATACAG
genomic: AACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAGgttcgtctgt ... tcccttgcagGTACTTGAATGCTATACAG

EST: gi|149086591|gb|EE176135.2|EE176135

EST:     AACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAG                         GTACTTGAATGCTATACAGACAAATGCACACCATCTTATTAGGTATCTAGC
genomic: AACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAGgttcgtctgt ... tcccttgcagGTACTTGAATGCTATACAGACAAATGCACACCATCTTATTAGGTATCTAGC

EST: gi|71772604|gb|DR970532.1|DR970532

EST:     AACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAG                         GTACTTGAATGCTATACAGACAAATG
genomic: AACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAGgttcgtctgt ... tcccttgcagGTACTTGAATGCTATACAGACAAATG

EST: gi|148932020|gb|EC875324.2|EC875324

EST:     AACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAG                         GTACTTGAATGCTATACAGACAAATGCACACCATCTTATTANGTATCTAGC
genomic: AACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAGgttcgtctgt ... tcccttgcagGTACTTGAATGCTATACAGACAAATGCACACCATCTTATTAGGTATCTAGC

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: 47 (upstream exon), 49 (downstream exon)
Score: 372

AGCTCCAGAACAGGATATGGCTGATGCATTGGGCTCTGTTCATCTTCTTTAACCATGAAAATGGTAGAAATGGGATCATTGATCTGTTCTTCCAGGACAGgttcgtctgt ... tcccttgcagGTACTTGAATGCTATACAGACAAATGCACACCATCTTATTAGGTATCTAGCTACTGCAGTTGTTGTCAACAAAAGGAGAAGGAATATGCTTAAAGAGTTG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 227

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 228