ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaattttggaaaacttccataaactccaactatttttgtttcttgctgaagctgaactaaggttttgtgattacaaatttacaactag

Basic information

species	Zea mays
transcript	GRMZM2G097421_T01
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G097421_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os05g35570.1 (Oryza sativa), 5'ss of exon 7

GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaattttggaaaacttccataaactccaactatttttgtttc--ttgctgaagctgaactaaggttttgtgattacaaatttacaactag
||| |||| ||||||||||| |||||||| || |||||||| ||||||||||||||||||||||| ||||| ||||||||||||||||||||||||| |   |||| | ||  ||||| |||  |||  || |||   | |  || ||  | |  || |  |    | || ||     ||| ||     
GCACTGGACACTTTCAATACCGCAGTTGTGTCCCCCATCTATTATGCGATGTTTACATCCCTCACTATTTTAGCAAGTGCCATAATGTTCAAGgtatgcaggttttagtaag-ttccacaaatgccagttagtttaagtccatttactagaacaaaaatttgagaatatgttttatggtttccag----

upper sequence: GRMZM2G097421_T01 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA06G16670.1 (Glycine max), 5'ss of exon 7

GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaattttggaaaacttccataaactccaactatttttgtttcttgctgaa-----gctgaactaaggttttgtgattacaaatttacaactag----------
|||||||||||||| || || |||||||||||||| |||||||||||  |||| |||||  | ||||| || || ||||| || ||||| |||||       ||   ||||        ||| | || |||        ||||   ||      ||| |||||   | |||| ||      |   |  ||            
GCATTGGATACTTTTAACACAGCAGTTGTTTCTCCGATCTACTATGCCTTGTTCACATCTTTTACAATATTAGCTAGTGCAATCATGTTTAAGgttggtattttactgaaacaaaatgaaaaatgcatctaaagagacatcttaacgatcaagtgctcaactatc-tgttgtaatcctgcctcctctgcttttattatttag

upper sequence: GRMZM2G097421_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv18s0086g00190.t01 (Vitis vinifera), 5'ss of exon 7

GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaattttggaaaacttccataaactccaactatttttgtttcttgctgaagctgaactaaggttttgtgattacaaatttacaactag
|| |||||||| ||||| || || ||||||||||| || || |||||  |||| |||||  ||||||||||||| ||||||||||||||||||||| |   || ||  || |  |  | |  || |  |  ||| |||||    ||| | |  |  |     | ||| |||  |             
GCTTTGGATACATTCAACACAGCGGTTGTTTCTCCAATATATTATGCTCTGTTCACATCATTCACAATTTTGGCCAGTGCCATAATGTTCAAGgtacttccatgttc-aatatattgaaatgcttcttccttttctgttttaaactgtaacatactt----ctctgttattttag------------

upper sequence: GRMZM2G097421_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv07s0031g02960.t01 (Vitis vinifera), 5'ss of exon 7

GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattcta--attttggaaaacttccataaactccaact-----------atttttgtttcttgctgaagctgaactaaggttttgtgattaca---aatttacaactag-----------------
||| ||||||||||||| || || |||||||||||||||||||||||  |||| |||||  | || ||||| || ||||  || ||||| |||||| ||||  ||      | || | || | || |   |            | | |    | || |      ||   |||  |    | | | ||   ||  |  || | |                 
GCACTGGATACTTTCAACACAGCCGTTGTTTCTCCCATCTACTATGCCTTGTTCACATCATTTACTATTTTAGCCAGTGTGATTATGTTTAAGgtactctatcatgcacacatacatgcacatacacacgcagggaaaaagagagtatgaactgtttccccttttgttataatatcaaatcacttcagtgaaactttaattggctttgctttatttctag

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|149013792|gb|EE043259.2|EE043259

EST:     ACATCCCTCACAATTTTGGCAAGGGCCATAATGTTCAAGG                         GACGGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGGGGGGT
genomic: ACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAA-Ggtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTT-GTGGGT

EST: gi|149012853|gb|EE042695.2|EE042695

EST:     TGCGATGTTTACATCCCTCACAAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: TGCGATGTTTACATCCCTCAC-AATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|148947644|gb|EC893124.2|EC893124

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|86468982|gb|DY235352.1|DY235352

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|149101363|gb|EE187480.2|EE187480

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|78118378|gb|DV536764.1|DV536764

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|40334623|gb|CK368693.1|CK368693

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|60349889|gb|DN216862.1|DN216862

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|94478877|gb|EB707835.1|EB707835

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|78123628|gb|DV542012.1|DV542012

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|94477225|gb|EB706183.1|EB706183

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|44901394|gb|CK827939.1|CK827939

EST:     GGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: GGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|71416856|gb|DR803834.1|DR803834

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCA-GTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCGGAGATTTG
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTG

EST: gi|86471099|gb|DY237469.1|DY237469

EST:     TTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: TTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|78079715|gb|DV508127.1|DV508127

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|148948890|gb|EC894304.2|EC894304

EST:     ATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|149005297|gb|EE039846.2|EE039846

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|211094620|gb|FL143748.1|FL143748

EST:     TGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: TGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|71416855|gb|DR803833.1|DR803833

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|148951156|gb|EC896835.2|EC896835

EST:     TTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: TTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

EST: gi|149070088|gb|EE158488.2|EE158488

EST:     ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAG                         GACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT
genomic: ATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTT

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: 201

GCATTGGATACTTTCAATACTGCAGTTGTTTCTCCCATCTACTATGCGATGTTTACATCCCTCACAATTTTGGCAAGTGCCATAATGTTCAAGgtattctaat ... ttacaactagGACTGGTCTGGGCAGAGTATAAGCAGTATTGCCTCTGAGATTTGTGGGTTTCTTACTGTGCTTACTGGTACTGTTGTACTGCATTCTACAAGAGAACATG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 338

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 290