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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttctagtaacttgtaattactggcatttgagagttcaagaattttctgccaatgttgtctcggattcctttgtgtaatctagagttctagacagg...

Basic information

species Zea mays
transcript GRMZM2G037698_T01
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G037698_T02 (Zea mays), 5'ss of exon 16
lower sequence: LOC_Os10g32880.1 (Oryza sativa), 5'ss of exon 14
TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttctagtaacttgtaattactggcatttgagagttcaagaattttctgccaa-tgttgtctcggat---tcctttgtgtaatctagagttctagacagg
|||||||||| ||||| ||||  ||||| ||  ||||||||||||||| ||||||| ||||   ||| || || | ||| | |||  | |   ||   | | | |  || | || | |  |||   |||| ||| |   ||  ||           
TGGAATTTGACTTTAGCGGAAGTTATCTAGCTGTTGGTGGTTCAGATACAAGgtattttctcaaaacctgcaagt-ctgaccttttggtgca-aatgttataccgtaaacttttatatttgatacctcctctgtttggccttcag-----------
















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|211149654|gb|FL454000.1|FL454000
EST:     AATTTGATTTTAGTGGAAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: AATTTGATTTTAGTGG-AAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|32908360|gb|CF013173.1|CF013173
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|5055844|gb|AI734731.1|AI734731
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|32934237|gb|CF039049.1|CF039049
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|78544020|gb|DV621518.1|DV621518
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|33090853|gb|CF050847.1|CF050847
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|32933281|gb|CF038093.1|CF038093
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|5713843|gb|AI943828.1|AI943828
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|32936163|gb|CF040975.1|CF040975
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|32837457|gb|CD977135.1|CD977135
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAAATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|148940044|gb|EC884787.2|EC884787
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|21391194|gb|BQ529243.1|BQ529243
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|78543890|gb|DV621388.1|DV621388
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|20336919|gb|BQ172549.1|BQ172549
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|33103734|gb|CF063694.1|CF063694
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
EST: gi|211124458|gb|FL005597.1|FL005597
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtgtctagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTCATCAAGACATT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttctagtaacttgtaattactggcatttgagagttcaagaattttctgccaatgttgtctcggattcctttgtgtaatctagagttctagacagg

- - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - TGGTGG