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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCTGATAGAAGAGCAGGAGCAGGAAGGAAAAAAGATGACATCTGATGATTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTGgtatgtactatactccgattcgagctgtatgccttttcatgaaaggaacatatatagtgcaaccatacagattggtgcaaccatgcagccaagacacaaa...

Basic information

species Zea mays
transcript GRMZM2G142984_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G142984_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g38620.1 (Oryza sativa), 5'ss of exon 5
---------TCTCTGATAGAAGAGCAGGAGCAGGAAGGAAAAAAGATGACATCTGATGATTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTGgtatgtactatact---ccgattcgagctgtatgccttttcatgaaaggaacatatatagtgcaaccatacagattggtgcaaccatgcagccaagacacaaa
         |||||| ||||      |||||||||||| |||||||    ||  ||||| ||||      |||||||||||||||| |||||||||   ||||| |||||||  |||||||||       ||  | |  | ||  ||    ||||  ||| | |   |          |    ||| | |  |    | |      ||||  
ATCGCTTATTCTCTGTTAGA------GGAGCAGGAAGGGAAAAAGAGAGGATACGATGAGTACA------TATCTTTTGTCAGCCTCCTTGCTGATCCCCGATATTGTGgtacttactatactgaattagtttaaaccat-tgagttcctttgaatcgaaaagacgaaactgctgtgcatgttttgttccttctgatctgttctttcaca--
















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|211452428|gb|FK953963.1|FK953963
EST:     TACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTG                         GCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
genomic: TACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTGgtatgtacta ... ctttatgtagGCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
EST: gi|149107225|gb|EE189109.2|EE189109
EST:     TTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTG                         GCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
genomic: TTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTGgtatgtacta ... ctttatgtagGCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
EST: gi|60358611|gb|DN225584.1|DN225584
EST:     TTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTG                         GCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
genomic: TTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTGgtatgtacta ... ctttatgtagGCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
EST: gi|211412953|gb|FL027553.1|FL027553
EST:     TTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTG                         GCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
genomic: TTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTGgtatgtacta ... ctttatgtagGCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
EST: gi|211452427|gb|FK953962.1|FK953962
EST:     TACAATTACATATCTTTTGTCAGCCCTTCTTGCTGATAAACGATACTGTG                         GCATACTATATCCTGATAAAGAAAGAAGTCCGTACCCTTGCTAAGGCAAG
genomic: TACAATTACATATCTTTTGTCAGCC-TTCTTGCTGATAAACGATACTGTGgtatgtacta ... ctttatgtagGCATACTATATCCTGA-AAAGGAAGAAGTCCGTACCCTT-CTAAGGCA-G
EST: gi|67015787|gb|CO444536.1|CO444536
EST:     CCTTCTTGCTGATAAACGATACTGTG                         GCGATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
genomic: CCTTCTTGCTGATAAACGATACTGTGgtatgtacta ... ctttatgtagGC-ATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
EST: gi|60344970|gb|DN211943.1|DN211943
EST:     TTACAATTACATATCTTTTGTCAGCTTTCTTGCTGATAAACGATACTGTG                         GCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
genomic: TTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTGgtatgtacta ... ctttatgtagGCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
EST: gi|111189956|gb|EE288092.1|EE288092
EST:     AAACGATACTGTG                         GCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
genomic: AAACGATACTGTGgtatgtacta ... ctttatgtagGCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
EST: gi|110531048|gb|EE035232.1|EE035232
EST:     CAGCCTTCTTGCTGATAAACGATACTGTG                         GCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG
genomic: CAGCCTTCTTGCTGATAAACGATACTGTGgtatgtacta ... ctttatgtagGCATACTATATCCTGAAAAGGAAGAAGTCCGTACCCTTCTAAGGCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTCTGATAGAAGAGCAGGAGCAGGAAGGAAAAAAGATGACATCTGATGATTACAATTACATATCTTTTGTCAGCCTTCTTGCTGATAAACGATACTGTGgtatgtactatactccgattcgagctgtatgccttttcatgaaaggaacatatatagtgcaaccatacagattggtgcaaccatgcagccaagacacaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT