ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttatacaagacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag

Basic information

species	Zea mays
transcript	GRMZM2G113203_T03
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G113203_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os06g36650.1 (Oryza sativa), 5'ss of exon 11

AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgtta-taca-agacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgatt-ttctaattgtgcag
|  || ||||||||||| |||||||||||||| ||  |||| || ||||||||||| |||||||| ||||||||||||||||||||||| || || || |||| |||| |||| | ||   | ||    || |  |||||  |||   ||   | || || |||    ||| | |           || | |  ||| | |     | | | ||  ||||| | |                  |     ||| || |||||||| |  ||||    ||||  ||||||||
AGGGTCATCAGGCAGCAATTCTCAAGTTGCACTGTGGTAACTATCGCTCACAGGGTTCCAACTGTAACAGACAGTGACAAGGTCATGGTACTTTCATATGgtaagttactacacacacgcatatcaatctg-aatatctgaggaaggttctggtccagtcatcgct-catccgaaccttc------ctctgatggccctgtcatccaaactgcacatatataaac------------------tgcacatatttggatgattcaagctgatggcccttctgtttgtgcag

upper sequence: GRMZM2G113203_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA08G20360.1 (Glycine max), 5'ss of exon 11

AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtat----gttatacaagacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag
 |||| || || |   | ||  ||   ||||||||| ||||| | |||||||| || |||||||| | ||| || |||| |||||||||||||||||| |||||    ||||   |     | |||   | |  |  |  | |||| | ||     |  |  || |   | || |  |      |  | | |   ||  |  | |                                                                                      
CAAGTGATTAGACGAGAATTTGCAGAATGCACGGTTGTAACCGTGGCTCACAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATGgtatacaagttaattacattttctttttcctttcaaaaatttcagatacgtttggcttttctctagtcctctctgcttcctcattttatt-ttgctggttactgtag------------------------------------------------------------------------------------

upper sequence: GRMZM2G113203_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA08G20770.2 (Glycine max), 5'ss of exon 10

AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttatacaagacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag
 || |||| || ||  | ||   |   ||||||||||||||  | ||||||||||| |||||||| | ||| ||||||| |||||||||||| ||||| ||||||||   ||  || | ||   |||| |    ||  |     |  | | |||  | |||      ||| |  |  |  | |  | | || |                                                                                              
CAAATAATTAGACAAGAATTTGTAGAATGCACGGTTATAACTGTGGCTCACAGGGTTCCAACTGTAATAGATAGTGACATGGTCATGGTCCTCTCCTATGgtatgtt---cattacttgttctttcattttttttccacctttta--ctacttctattctctagt--tcactcagttacctcattttttaaag----------------------------------------------------------------------------------------------

upper sequence: GRMZM2G113203_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA07G01380.1 (Glycine max), 5'ss of exon 7

AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttatacaagacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag
                              ||  |   ||  ||   |  |   | |     | |   | | ||  | |   |  | ||  |    | |  |   || | ||| | ||      | |   ||  ||  |||  | |     |             ||| | | || |  | | | |  |||    | |||     |   |     ||    ||   ||||   ||                                                    
------------------------------ACAATGCCAATTAT--TTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTG-ATTCTGCAACAGATGCCATTTTACAAAGGgtcctcaggcatgaattctctgaatgcacagttataaatgtggctcacagagttccaac-tgtaatagacagtgacatggtcatggt-cctgtcttatgtta----------------------------------------------------

upper sequence: GRMZM2G113203_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA07G01390.1 (Glycine max), 5'ss of exon 12

AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttatacaagacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag
 || |||| || ||  | ||  | |  ||||| ||||||||  | ||||||||||| |||||||| | ||| ||||||| |||||||||||| ||||| |||||||| | ||      ||||  || |      |    | || | | | ||||  |      ||| ||| | ||     | | || |   |  ||| | || || |                                                                                
CAAATAATTAGACAAGAATTTGCCAAATGCACAGTTATAACAGTGGCTCACAGGGTTCCAACTGTAATAGATAGTGACATGGTCATGGTCCTCTCCTATGgtatgtttttca------tttttctcctcctttttagatataatacttctattctct------aat-tcactctg-----ttacctttttttttcttgt-tgctaaag-------------------------------------------------------------------------------

upper sequence: GRMZM2G113203_T01 (Zea mays), 5'ss of exon 10
lower sequence: GLYMA08G20780.1 (Glycine max), 5'ss of exon 12

AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttatacaagacatttttcgtcatgtagcatctgca----gaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag
 |||| ||||| ||  | || |||   ||||| ||||||||  | |||||||| || |||||||| | ||||||||||| |||||||||||| ||||| |||||||| |       |||  | | ||    |   ||  |    |||    || || |||      || | | | |   |  ||   |     ||||  |                                                                                           
CAAGTCATCAGACAAGAATTTTCAGAATGCACAGTTATAACGGTGGCTCACAGAGTTCCAACTGTAATAGACAGTGACATGGTCATGGTCCTATCCTATGgtatgttgttattattattaataggcactccgtgcctagacttggaagttacctatacatgtggttgagtgtaacttgtattgaatgatgcaaaatgttt-------------------------------------------------------------------------------------------

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|6828140|gb|AW331783.1|AW331783

EST:     CAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACG                         GGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT
genomic: CAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttata ... aattgtgcagGGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT

EST: gi|78021398|gb|DV489785.1|DV489785

EST:     ACAGACAGTGACAAGGTCATGGTCCTGTCCTACG                         GGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT
genomic: ACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttata ... aattgtgcagGGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT

EST: gi|37391070|gb|CF632775.1|CF632775

EST:     CAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACG                         GGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT
genomic: CAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttata ... aattgtgcagGGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT

EST: gi|32933219|gb|CF038031.1|CF038031

EST:     TACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACG                         GGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT
genomic: TACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttata ... aattgtgcagGGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT

EST: gi|101387128|gb|EB815581.1|EB815581

EST:     CAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACG                         GGAAGCTTTTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT
genomic: CAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttata ... aattgtgcagGGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT

EST: gi|5917346|gb|AW054137.1|AW054137

EST:     TGTG-CAGACAGTGACAAGGTCATGGTCCTGTCCTACG                         GGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT
genomic: TGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttata ... aattgtgcagGGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAAT

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: 38 (upstream exon), 48 (downstream exon)
Score: 31

AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttata ... aattgtgcagGGAAGCTTCTAGAATATGAAACACCAGCCAAGCTGTTGGAAGACAAACAATCAGCATTTGCTAAACTTGTGGCTGAGTATTGGGCTAATACCAAGAGAAA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 363

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 643