Skip to another splice site:
1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttttagtagtttcagcactgatttatcttgcaaggcagaatgctgccttttcagtttacttctgccttcacttataaagcatctgttcttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCTTGTCTATGATGTCACCCGGCACTCAACCTTTGAGAATGTTGAGCGCTGG

Basic information

species Oryza sativa
transcript LOC_Os06g35814.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g35814.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G101938_T01 (Zea mays), 3'ss of exon 1
tttttttagtagtttcagcactgatttatcttgcaaggcagaatgctgccttttcagtttacttctgcc----ttcacttataaagcatctgttcttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCTTGTCTATGATGTCACCCGGCACTCAACCTTTGAGAATGTTGAGCGCTGG
| |||  ||  |  | |    | |||||    | ||  || | ||  |||||    | | |||| |       || || | |    |  ||  |||   |||||||| ||||||||||||||||| ||||| |||||||||||||| ||||||||||| ||||| ||||| || ||||||||||||||||| |||||||| |||
tatttaaagccggattata--taatttagagggtaaa-caaactgg-gccttacttggtcacttgtattaatgttaaccttttggtctcctcatctcactgcagATATCGTGCTATTACTAGTGCGTATTATCGAGGTGCTGTTGGGGCGTTGCTTGTATATGACGTCACTCGTCACTCAACCTTTGAGAACGTTGAGCGTTGG

upper sequence: LOC_Os06g35814.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G018619_T02 (Zea mays), 3'ss of exon 2
--------tttttttagtagtttcagcactgatttatcttgcaaggcagaatgctgccttttcagtttacttctgccttcacttataaagcatctgttcttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCTTGTCTATGATGTCACCCGGCACTCAACCTTTGAGAATGTTGAGCGCTGG
        |||| | ||   |    | ||||| ||  |||||||  |||||| ||  |  ||  |||||||| |    |||||         |    | |   |||||||||||||| || |||||||| ||||||||||| |||||||| ||||||||||| ||||| ||||| || ||||||||||||||||| |||||||| |||
taatgttcttttatcagcgttaatggaactgaatttccttgcaattcagaattctctccatttggtttacttat---ctcact-----gcagttcaatatcactgcagATACCGTGCAATCACTAGTGCGTATTACCGAGGCGCTGTTGGGGCGTTGCTTGTATATGACGTCACTCGCCACTCAACCTTTGAGAACGTTGAGCGTTGG

upper sequence: LOC_Os06g35814.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT5G45750.1 (Arabidopsis thaliana), 3'ss of exon 1
--tttttttagtagtttcagcactgatttatcttgcaaggc--agaatgctgccttttcagtttacttctgccttcacttataaagcatctgttcttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCTTGTCTATGATGTCACCCGGCACTCAACCTTTGAGAATGTTGAGCGCTGG
    |  |  | | |   | |  | |    ||||||           | |||   |||| ||| ||||    ||    ||     |  | ||||        || ||||| || || |||||||| ||||||||||| |||||||||||| | |||||||| ||||| ||||| |||||||| ||||| || ||||||   |||
tgcatagtctgaattcgaaactgtaaagcttcttgccttttttgtgttcctgatgtttcggttaacttaattctctgttt-cgttgactttgtttca---atagGTACCGAGCCATCACTAGTGCGTATTACCGAGGAGCTGTTGGAGCGCTTCTTGTCTACGATGTAACCCGACACTCAACATTTGAAAACGTTGAGACTTGG

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|4880652|gb|AU064951.1|AU064951
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGNCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|88329690|gb|CI650156.1|CI650156
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGT
EST: gi|88722292|gb|CI745802.1|CI745802
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|88346750|gb|CI657301.1|CI657301
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGC
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGC
EST: gi|4880849|gb|AU065148.1|AU065148
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|8857674|gb|AU094992.1|AU094992
EST:     GCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGA-GTGCTGTTGGAGCGTTGCT
genomic: GCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|4880430|gb|AU064729.1|AU064729
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|8857670|gb|AU094988.1|AU094988
EST:     GGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|4880371|gb|AU064670.1|AU064670
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|88339275|gb|CI633846.1|CI633846
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|55827988|gb|AU065116.2|AU065116
EST:     GACGGCAAGGTCGTNAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTANTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|2311733|gb|C27888.1|C27888
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|7332626|gb|AU085972.1|AU085972
EST:     CGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: CGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|29626127|gb|CB631138.1|CB631138
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|4880369|gb|AU064668.1|AU064668
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|4880629|gb|AU064928.1|AU064928
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|86900672|gb|CI302089.1|CI302089
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|2312651|gb|C28806.1|C28806
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|55827972|gb|AU064674.2|AU064674
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|4880587|gb|AU064886.1|AU064886
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|4880636|gb|AU064935.1|AU064935
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGNCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|88575794|gb|CI669939.1|CI669939
EST:     GANGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|13896614|gb|AU182950.1|AU182950
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|33688130|gb|CF316369.1|CF316369
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|88386834|gb|CI629161.1|CI629161
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGNCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|88403122|gb|CI570863.1|CI570863
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|88336030|gb|CI645631.1|CI645631
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGA
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGA
EST: gi|4880759|gb|AU065058.1|AU065058
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|13896792|gb|AU183128.1|AU183128
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|33680777|gb|CF309016.1|CF309016
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|29626128|gb|CB631139.1|CB631139
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|88693301|gb|CI736876.1|CI736876
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGACCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGT
EST: gi|4880610|gb|AU064909.1|AU064909
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|7404264|gb|AU065098.2|AU065098
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|4880347|gb|AU064646.1|AU064646
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|33653780|gb|CF276394.1|CF276394
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|4880647|gb|AU064946.1|AU064946
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|5667428|gb|AU077670.1|AU077670
EST:     CCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGANCGTTGCT
genomic: CCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|33654121|gb|CF276735.1|CF276735
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|11025683|gb|AU162284.1|AU162284
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|33655110|gb|CF277724.1|CF277724
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
EST: gi|33691580|gb|CF319819.1|CF319819
EST:     GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCG                         ATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT
genomic: GACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCT

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 1 RNA-Seqlibrary.


Block sizes: 71 (upstream exon), 75 (downstream exon)
Score: 38

AGTCCAAGTCCACCATCGGCGTCGAGTTCGCCACCCGCTCCCTCCAGGTCGACGGCAAGGTCGTCAAGGCCCAGATTTGGGACACCGCCGGCCAGGAGCGgtacgcccct ... cttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCTTGTCTATGATGTCACCCGGCACTCAACCTTTGAGAATGTTGAGCGCTGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgccttttcagtttacttctgccttcacttataaagcatctgttcttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCTTGTCTATGATGTCACCCGGCACTCAACCTTTGAGAATGTTGAGCGCTGG
                                       tctgttctt  CT-rich tract
                           acttataaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttttttagtagtttcagcactgatttatcttgcaaggcagaatgctgccttttcagtttacttctgccttcacttataaagcatctgttcttggtgcagATACCGTGCTATTACTAGTGCATATTACCGAGGTGCTGTTGGAGCGTTGCTTGTCTATGATGTCACCCGGCACTCAACCTTTGAGAATGTTGAGCGCTGG

- - - - - - -ttcagca
- - - - - - - - - - - - - - tcttgca
- - - - - - - - - - - - - - - - - - - - - -tgctgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatctg