ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGGCCAAGCCTATATGACTTTCTGCGAAAGAATAGCTACCGTTCATTTCCTATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactcagtttactctggctacacttaaatgcaaccatctagtcttttgaattttgagcaacatcattagacttgcgataaagtcttctgaatttt...

Basic information

species	Zea mays
transcript	GRMZM2G386991_T01
intron #	6
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 8

GGGCCAAGCCTATATGACTTTCTGCGAAAGAATAGCTACCGTTCATTTCCTATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactcagtttactctggctacacttaaatgcaaccatctagtcttttga---attttgagc--aacatcattagacttgcgataaagtcttctgaatttt-----
|| |||||| |||||||||| || ||||||||||| || ||| ||||||| || |||||||| || ||||||||||||||||||||||||||||||||||||| ||| |||||| | |   |||     |   |    | |  ||   |||||    || |||  |  ||||  ||||  ||   | | |  |  |   ||| ||     
GGACCAAGCTTATATGACTTCCTCCGAAAGAATAGTTATCGTGCATTTCCGATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgggtattcagttaatttctgctgtttgttggttatgcaaattaacgttttgttttatcttgcccctaacagtattattctaatgtttattttattgtaatatttgcag

upper sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA03G33100.1 (Glycine max), 5'ss of exon 6

GGGCCAAGCCTATATGACTTTCTGCGAAAGAATAGCTACCGTTCATTTCCTATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactcagtttactctggctacacttaaatgcaaccatctagtcttt-tgaattttgagcaacatcattagacttgcgataaagtcttctg-aatttt----
|| |||||| ||||||| ||||| || || || ||||| ||||| ||||||||||| ||||| || || |||| ||||||| | || |||||||| ||||||| ||   || ||| || |  | ||    ||||      || || | ||| || ||||    |  |    || |   |   | |    | | |  |||  |    
GGACCAAGCTTATATGATTTTCTCCGCAAAAACAGCTATCGTTCTTTTCCTATTGATCTTGTTCGGGAGTTTGGCAGACAACTTTTGGAGTCTGTAGCATgtgtgtggaca-tttcctgtaccaactaccaaat-----tatatattttttgtgtatttgatactcctctgttgggagtttaagatgtgcatatataataataagt

upper sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT3G53570.4 (Arabidopsis thaliana), 5'ss of exon 8

GGGCCAAGCCTATATGACTTTCTGCGAAAGAATAGCTACCGTTCATTTCCTATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactcagtttactctggctacacttaaatgcaaccatctagtcttttgaattttgagcaacatcattagacttgcgata-aagtcttctgaatttt----
|| |||||| ||||||| ||||| || || || ||||||||||||||||| ||||| ||||| || ||  ||| ||||||| | || |||||||||||||||| ||    | | | ||    | |  |||  ||  |    || | |  |   |      | ||   |  |||   ||  |||| ||| |||  |  ||      
GGACCAAGCTTATATGATTTTCTCCGCAAAAACAGCTACCGTTCATTTCCCATTGATCTTGTTCGGGAGCTTGGCAGACAACTTTTGGAGTCTGTTGCATgtgtgtg--gaatattcttgacccattcttctatatagtagtccattagtgcca---caaatcatttttcttaactttttgatacaagacttaggcgttaatagt

upper sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv08s0040g02640.t01 (Vitis vinifera), 5'ss of exon 6

GGGCCAAGCCTATATGACTTTCTGCGAAAGAATAGCTACCGTTCATTTCCTATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactcagtt--tactctggctacacttaaatgcaaccatctagtcttt---tgaattttgagcaacatcattagacttg-cgataaagtcttctgaatttt
|| |||||| |||| || ||||| || || || ||||||||||| ||||||||||| ||||| || ||  ||| ||||||| | || |||||||| ||||||| ||   || ||  | | |        ||  | ||||  |   |  |  ||   ||| |||| |   | | ||  |  || | |  | | || | ||       
GGACCAAGCTTATACGATTTTCTCCGCAAAAACAGCTACCGTTCTTTTCCTATTGATCTTGTTCGGGAGCTTGGCAGACAACTTTTGGAGTCTGTAGCATgtgtgtggacaattcttgcaccattctatctatattgcagtcccttgatgcttaaatgatttttaaatgataccaagaatctgggcattgatgtttacta------

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|211512137|gb|FL430403.1|FL430403

EST:     TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCAT                         TTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAGAACATTC
genomic: TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactc ... tcctctatagTTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTC

EST: gi|32866970|gb|CF006652.1|CF006652

EST:     TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCAT                         TTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAGAACATTC
genomic: TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactc ... tcctctatagTTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTC

EST: gi|149089547|gb|EE178794.2|EE178794

EST:     TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCAT                         TTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTC
genomic: TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactc ... tcctctatagTTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTC

EST: gi|6095292|gb|AW119959.1|AW119959

EST:     TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCAT                         TTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTC
genomic: TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactc ... tcctctatagTTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTC

EST: gi|6695913|gb|AW289021.1|AW289021

EST:     TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCAT                         TTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTC
genomic: TATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactc ... tcctctatagTTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTC

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: 44 (upstream exon), 49 (downstream exon)
Score: 154

GGGCCAAGCCTATATGACTTTCTGCGAAAGAATAGCTACCGTTCATTTCCTATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactc ... tcctctatagTTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 161

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 179