ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgctctttcactagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttacataagtgtgattttgccttgatgcag

Basic information

species	Zea mays
transcript	GRMZM2G415007_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g02410.1 (Oryza sativa), 5'ss of exon 5

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgctctttcactagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttaca-taagtgtgattttgccttgatgcag--
|||||||||||||||||||| |||||||||||||||||||||| |||||| ||||| |||||||||||  | ||||||||||| |||||||| || |||||||||   ||   ||||        |   | || |||  |      ||  |       || ||| || | | |  ||| |||    ||| | |    
AAGGAGCCCAACAAGGGTGTCAACCCTGATGAGGCTGTTGCCTATGGTGCTGCGGTTCAGGGAAGCATTCTCAGCGGCGAGGGCGGTGACGAAACCAAAGgttcgac-cttgatcacatacatagtcctttgg-gttggtaacaactgcgatcatctgtcttgcatatacttatcgtgctttgattttggtacgcag

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA05G36620.1 (Glycine max), 5'ss of exon 5

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgctctttcac-tagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttacat----aagtgtgattttgccttgatgcag-------------------
|||||||| ||||||||||| ||||||||||| || ||||||| |||||| || ||||| |||||||| ||||| || ||||||||||| || || |||||| | ||  ||| | |  |||   |  |  |   |||       || |  |  |  |   |    ||| ||    |||  | |   |  ||    |  |                   
AAGGAGCCAAACAAGGGTGTCAACCCTGATGAAGCAGTTGCCTATGGTGCTGCAGTGCAAGGAAGCATTTTGAGTGGAGAGGGTGGTGAAGAAACCAAAGgtaccgtagtctgtaatgtagcttttaaattacttgtcccgaagtcataaatattatttacgcaattagattgctaagcataacactttctaatcgttgtgtggcaatatctatccag

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA05G36600.1 (Glycine max), 5'ss of exon 5

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgt-------tcggtgctct-----ttcactagtgctatag-----ctgggtgtttttttttcttgtaagtggtcatcc------tgcttacataagtgtgattttgccttgatgcag
|||||||| ||||||||||| ||||||||||| || ||||||| |||||| || ||||| |||||||| ||||| || ||||||||||| || || ||||||       || ||  |||      ||| || |  |  ||     ||   | || ||| | |  |||  | | ||  |         |  |||   ||||    |  || ||| |||
AAGGAGCCAAACAAGGGTGTCAACCCTGATGAAGCAGTTGCCTATGGTGCTGCAGTGCAAGGAAGCATTTTGAGTGGAGAGGGTGGTGAAGAAACCAAAGgtactacagtctgtaatctaacttctcattacttgtccagaaatcctaaatattatttatgcaagtagattgccacgcattacactttctcattgttgtgtggctctctggatccag

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G02960.1 (Glycine max), 5'ss of exon 5

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgctctttcactagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttacataagtgtgattttgccttgatgcag--------------------------------
|||||||| ||||||||||| ||||||||||| || ||||||| |||||| || ||||| |||||||| ||||| || ||||||||||| || || |||||| | ||  |||       ||  | || ||      ||  || ||  | ||      ||  |  |||   ||||  |||| || |    | |                                  
AAGGAGCCAAACAAGGGTGTCAACCCTGATGAAGCAGTTGCCTATGGTGCTGCAGTGCAAGGAAGCATTTTGAGTGGAGAGGGTGGTGAGGAAACCAAAGgtactgtagtct-------gtaatctaacttctcaattacttgtccagaaatcataaatattatttatgcaagta-gattgtgacacattacgctgtctcattgttgtgtggctctctggatccag

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G02940.1 (Glycine max), 5'ss of exon 5

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgctctttcactagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttacataagtgtgattttgccttgatgcag
|||||||| |||||||| || ||||||||||| || ||||||| |||||| || ||||| |||||||| ||||| || ||||||||||| || || |||||| |  |  ||| |    | |  |||   |||  ||   ||  |     |||   | |  ||   || ||   ||||       ||  || |||
AAGGAGCCAAACAAGGGGGTCAACCCTGATGAAGCAGTTGCCTATGGTGCTGCAGTGCAAGGAAGCATTTTGAGTGGAGAGGGTGGTGAAGAAACCAAAGgtaccatagtctgt---aaatattatttatggaagtagattgct-----aagca-ttacactttcta-attgttgtgtggcaatctctatccag

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 5'ss of exon 5

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgctctttcactagtgct-atagctgggtgtttttttttcttgtaagtggtcatcctgcttacataagtgtgattttgccttgatgcag
||||| |||||||||||||||||||| ||||||||||||||||||||||| || || || |||||||| ||||| || ||||||||||| ||||| ||||||    |   | ||| |||    | |  | | | || || |   ||  ||        ||  |    |  | | | |||| ||   |  ||||||
AAGGAACCCAACAAGGGTGTGAACCCAGATGAGGCTGTTGCCTTTGGTGCTGCTGTACAAGGAAGCATTTTGAGTGGAGAGGGTGGTGATGAGACCAAAGgtatcatttccattctctatcaatgaccgatagatggttgtgcatcgagtgttgatgaatggtagacatttga-tatgatatttgttccatgcag

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 5'ss of exon 5

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgctctttcactagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttacataagtgtgattttgccttgatgcag
|| || |||||||||||||||||||| ||||| || ||||| | |||||| || || || |||||||||||||| || ||||||||||| || || ||||||    |  ||  ||   |      | || |    ||   |    | ||     ||     |||| ||    ||    || |  | ||   |||
AAAGAACCCAACAAGGGTGTGAACCCGGATGAAGCCGTTGCTTATGGTGCTGCTGTACAAGGAAGCATCTTGAGTGGAGAGGGTGGTGATGAAACCAAAGgtattat-ttccatcctcaccatcttcgcagaaccttcaatggcatggttgaaagtt----tgctaactcttgttctgttgtttcatgtatcag

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: EDP06859 (Chlamydomonas reinhardtii), 5'ss of exon 5

------------------AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTG-GTGACGAGACAAAAGgttcggtgctctttcactagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttacataagtgtgattttgccttgatgcag
                  |||||||||||||||||||| ||||| |||||||| || ||||  || || || ||||||||    ||| | ||||| || |||| |||    | | |  || |  |||     |   | |     | | |||| |||| |  |   ||  || |     | ||| | | | || |    |   |   |      
CGCGAGTGGTTCGGCGGCAAGGAGCCCAACAAGGGTGTCAACCCCGATGAGGCCGTGGCCTACGGCGCGGCCGTGCAGGGCGCAATCCTCAGCGGGGAAGgtgcgtgggagggcgagtggataagtgg---atggatggacgggtggatgggagtttctggtaggtgggaggg-----cgtgcgtgcgtgag-gcaggtgcacaaaggg----

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: EFJ17607 (Selaginella moellendorffii), 5'ss of exon 5

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgctctttcactagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttacataagtgtgattttgccttgatgcag
|||||||| ||||||||||||||||| || |||||||| || |||||||| || || |||||  | ||||||||||| || || || |||||    ||||||  |    |  ||  ||  |  | ||  |      |  |    |  ||   | | ||                                    
AAGGAGCCGAACAAGGGTGTGAACCCCGACGAGGCTGTGGCTTTTGGTGCTGCTGTCCAGGGCGGTATCTTGAGCGGTGAAGGCGGCGACGATGTTAAAGgtaagcaaatacttgtcttcttttgtaattcatctgtgctaacgcgcgtccattgacag-----------------------------------

upper sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 5
lower sequence: EFJ29073 (Selaginella moellendorffii), 5'ss of exon 5

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgctctttcactagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttacataagtgtgattttgccttgatgcag
|||||||| ||||||||||||||||| || |||||||| || |||||||| || || |||||  | ||||||||||| || || || |||||    ||||||  |       ||  ||  |  | ||         |  |    |  ||   | | ||                                    
AAGGAGCCGAACAAGGGTGTGAACCCCGACGAGGCTGTGGCTTTTGGTGCTGCTGTCCAGGGCGGTATCTTGAGCGGTGAAGGCGGCGACGATGTTAAAGgtaagcaaagacttgtcttcttttgtaatccatctgtgctaacgcgcgtccatcgacag-----------------------------------

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|149067539|gb|EE157747.2|EE157747

EST:     CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAG                         ATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG
genomic: CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgct ... cttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG

EST: gi|211197978|gb|FL446530.1|FL446530

EST:     CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAG                         ATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGT
genomic: CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgct ... cttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGT

EST: gi|20300524|gb|BQ163467.1|BQ163467

EST:     CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAG                         ATATCCTCCTCCTTGACGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG
genomic: CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgct ... cttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG

EST: gi|14529531|gb|BI096664.1|BI096664

EST:     CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAG                         ATATCCTCCTCCTTGACGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG
genomic: CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgct ... cttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG

EST: gi|87153886|gb|DY398675.1|DY398675

EST:     CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAG                         ATATCCTCCTCCTTGACGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG
genomic: CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgct ... cttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG

EST: gi|19770559|gb|BQ035280.1|BQ035280

EST:     CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAG                         ATATCCTCCTCCTTGACGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG
genomic: CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgct ... cttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG

EST: gi|211320987|gb|FL255017.1|FL255017

EST:     CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAG                         ATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG
genomic: CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgct ... cttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG

EST: gi|15198951|gb|BI423577.1|BI423577

EST:     CGCGGTGCA-GGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAG                         ATATCCTCCTCCTTGACGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG
genomic: CGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgct ... cttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCG

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), 49 (downstream exon)
Score: 312

AAGGAGCCCAACAAGGGTGTGAACCCTGATGAGGCTGTTGCCTTTGGTGCCGCGGTGCAGGGAAGCATCTTGAGCGGCGAGGGTGGTGACGAGACAAAAGgttcggtgct ... cttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCGGTGGAGTCATGACCAAGTTGATCCCGAGGAACACTGTCATCCCGACCAA

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 379

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 323