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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTACCCAGGAGCAAATCACAAGGGTTCTTCTGGAGCGTCTCATAGTGAACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttgtttcgtgtggttaattaaaatattattgcaggcgctcgagcactaaataaatgcacctttcttgtgttag

Basic information

species Zea mays
transcript GRMZM2G065130_T01
intron # 13
splice site 5'
intron type U2

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|32933969|gb|CF038781.1|CF038781
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|28983531|gb|BQ539575.2|BQ539575
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|33100958|gb|CF060918.1|CF060918
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|7145572|gb|AW507053.1|AW507053
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|32935273|gb|CF040085.1|CF040085
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|12046716|gb|BF728855.1|BF728855
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|74243503|gb|DT651417.1|DT651417
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|28983873|gb|BQ538838.2|BQ538838
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|211523269|gb|FL465590.1|FL465590
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|211523268|gb|FL465589.1|FL465589
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTYTTTTACACMCTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|60400854|gb|DN233661.1|DN233661
EST:     ACCGCCCCCATCCTTTGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|113701130|gb|EE678634.1|EE678634
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|211448996|gb|FL452553.1|FL452553
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|61119680|gb|DN560641.1|DN560641
EST:     TTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: TTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|44901063|gb|CK827608.1|CK827608
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|45847106|gb|CN071049.1|CN071049
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|37386121|gb|CF630236.1|CF630236
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|32847419|gb|CD987100.1|CD987100
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|15427149|gb|BI542971.1|BI542971
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|241994794|gb|GR421147.1|GR421147
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|31358677|gb|CD443034.1|CD443034
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|16925324|gb|BM078392.1|BM078392
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|67021500|gb|CO450249.1|CO450249
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG
EST: gi|32847417|gb|CD987098.1|CD987098
EST:     ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAG                         AATCCGCGTTACAACTTTTGGAGCCGGTCTTCTACACACTGTGCACCTGAG
genomic: ACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAG

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), 46 (downstream exon)
Score: 144

AATTACCCAGGAGCAAATCACAAGGGTTCTTCTGGAGCGTCTCATAGTGAACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAGATAGAGAAACTGTTCGAGTCGGTGGCAAGGTCATGTGGCGCAAAAGTTG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 64

AATTACCCAGGAGCAAATCACAAGGGTTCTTCTGGAGCGTCTCATAGTGAACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAGATAGAGAAACTGTTCGAGTCGGTGGCAAGGTCATGTGGCGCAAAAGTTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 109

AATTACCCAGGAGCAAATCACAAGGGTTCTTCTGGAGCGTCTCATAGTGAACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAGATAGAGAAACTGTTCGAGTCGGTGGCAAGGTCATGTGGCGCAAAAGTTG


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 49

AATTACCCAGGAGCAAATCACAAGGGTTCTTCTGGAGCGTCTCATAGTGAACCGCCCCCATCCTTGGGGGTTACTTATTACTTTCATTGAATTGATAAAGgtatgctttg ... cttgtgttagAATCCGCGTTACAACTTTTGGAGCCGGTCTTTTACACACTGTGCACCTGAGATAGAGAAACTGTTCGAGTCGGTGGCAAGGTCATGTGGCGCAAAAGTTG