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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCTAGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagagaggtggagggaggaatattcgttgctccaatgtagaacgctttgtcacgtgcatctttagctgggtatcctcagacagagttatgtggtgttcatcccaatcacag

Basic information

species Zea mays
transcript GRMZM2G044629_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044629_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os04g52370.2 (Oryza sativa), 5'ss of exon 2
AGCCTAGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaag----agaggtggagggag-gaatattcgttgctccaatgtagaacgctttgtcacgtgcatctttagctgggtatcctcagacagagttatgtggtgttcatcccaatcacag
||||| || || |||||||| |||||||||||||||||||||||||||||||||||||||| |      || || |||||  ||| | |  |   |||||||||||||  || || |  || || |||   |       ||         |||| |                    
AGCCTGGATCTTTCAAGGATTGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaggtctctcagttgaagggaaagaacaattatctttccaatgtagaaca-ttagttaattgtatttttttatcatcgcacttgccttagtttattt--------------------
















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|149081508|gb|EE170644.2|EE170644
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|211249747|gb|FL285802.1|FL285802
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|149015643|gb|EE045441.2|EE045441
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|40337292|gb|CK371362.1|CK371362
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTT-GATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|149100896|gb|EE186991.2|EE186991
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|149014175|gb|EE043721.2|EE043721
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|148958334|gb|EC904558.2|EC904558
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|211249750|gb|FL285805.1|FL285805
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|71429565|gb|DR810615.1|DR810615
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|148982619|gb|EE028417.2|EE028417
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|211249751|gb|FL285806.1|FL285806
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|211251970|gb|FL285809.1|FL285809
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|149090039|gb|EE179333.2|EE179333
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|78115803|gb|DV534191.1|DV534191
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|148956834|gb|EC902742.2|EC902742
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|91052249|gb|EB162667.1|EB162667
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|149014877|gb|EE044588.2|EE044588
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|148943648|gb|EC888712.2|EC888712
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|211249749|gb|FL285804.1|FL285804
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|71757247|gb|DR955184.1|DR955184
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|211249748|gb|FL285803.1|FL285803
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|148990989|gb|EE032426.2|EE032426
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|94477177|gb|EB706135.1|EB706135
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|31354041|gb|CD438398.1|CD438398
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTATTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|211249753|gb|FL285808.1|FL285808
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|76282035|gb|DV021603.1|DV021603
EST:     AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAG                         GCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGG
EST: gi|148966182|gb|EE017130.2|EE017130
EST:     AGACCTCTCAGGGATCGATCGGATCATCCGGCGCTCCCTTGGATCGCAAG                         GCATCCCATTGCCTGCTGT
genomic: AGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGT

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), 41 (downstream exon)
Score: 71

AGCCTAGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGGTGGAGGGCAGGTCTGCAGAGGACAAAGAAAGATGGTGGAAGAAGGGGTT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 107

AGCCTAGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGGTGGAGGGCAGGTCTGCAGAGGACAAAGAAAGATGGTGGAAGAAGGGGTT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 105

AGCCTAGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGGTGGAGGGCAGGTCTGCAGAGGACAAAGAAAGATGGTGGAAGAAGGGGTT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 173

AGCCTAGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaagag ... ccaatcacagGCATCCCATTGCCTGCTGTCGAGCCCGTGCCGGAATCTAGTGTCTCCAAGGTGGAGGGCAGGTCTGCAGAGGACAAAGAAAGATGGTGGAAGAAGGGGTT