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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttctagtaacttgcaattactggtatttgagggttgaatttcctggcaatgttgtcggggattcccatgtctaatctagacagggtatatagacc...

Basic information

species Zea mays
transcript GRMZM2G324540_T01
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G324540_T01 (Zea mays), 5'ss of exon 16
lower sequence: LOC_Os10g32880.1 (Oryza sativa), 5'ss of exon 14
TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttctagtaacttgcaattactggtatttgagggttgaatttcctggcaatgttgtcggggattcccatgtctaatctagacagggtatatagacc
|||||||||| ||||| ||||  ||||| ||  ||||||||||||||| ||||||| ||||   ||| ||||| | |||   |||  | |   ||| |  |  |       |      ||   ||  ||  |||     |  |  |      
TGGAATTTGACTTTAGCGGAAGTTATCTAGCTGTTGGTGGTTCAGATACAAGgtattttctcaaaacctgcaagt-ctgaccttttggtgc-aaatgttataccgtaaacttttatatttg--atacctcctctgtttggccttcag-----
















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|211013333|gb|FL464492.1|FL464492
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|211328788|gb|FL441397.1|FL441397
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|211328787|gb|FL441396.1|FL441396
EST:     ATTTTGATTTTAGTGGAAACTATCCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: AATTTGATTTTAGTGGAAACTAT-CTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|211125230|gb|FL005603.1|FL005603
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|16379531|gb|BI993008.1|BI993008
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|37394216|gb|CF634379.1|CF634379
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|32932206|gb|CF037018.1|CF037018
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|32835196|gb|CD974874.1|CD974874
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|32834072|gb|CD973750.1|CD973750
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|13490540|gb|BG517304.1|BG517304
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|211152716|gb|FL458060.1|FL458060
EST:     TGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: TGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|32931746|gb|CF036558.1|CF036558
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|13490541|gb|BG517305.1|BG517305
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|32939397|gb|CF044216.1|CF044216
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|116828456|gb|EC857640.1|EC857640
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
EST: gi|32835644|gb|CD975322.1|CD975322
EST:     GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG                         GGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT
genomic: GAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttcta ... ctgtctgtagGGTCTACCAAGTAGCTAATGTTAAGGCCGAATGGAATCTTATCAAGACATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAGgtatgttctagtaacttgcaattactggtatttgagggttgaatttcctggcaatgttgtcggggattcccatgtctaatctagacagggtatatagacc

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