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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggtatgctgtagagcaatttacctgttcatttttttccatggagacatttttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA

Basic information

species Oryza sativa
transcript LOC_Os06g37180.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 7
atggtatgctgtagag-caatttacctgttcatttttttccatggagacat-ttttgcatcgctgaatcactgcttatttgctgattac--tttta--atctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
      | ||||   | |||  |   | |  |   || |  ||  |   ||  ||| |||  || ||| |  ||||| |  ||| ||    |||||  | || ||||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||||||| || |
-----ttcctgtgaggtcaacatttatatggaggattgtgtattcatgtatgctttacatgtcttaataag-gcttagtcactggttctgattttattacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAACGGTTCCA

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 7
atggtatgctgtagag-caatttacctgttcatttttttccatggagacat-ttttgcatcgctgaatcactgcttatttgctgatt---actttt--aatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
      | |||||  | |||  | | | |  |   || |  ||  |   ||  ||| |||  || ||| |  ||||| |  ||| ||   | ||||  || || ||||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||| || || |
------tactgtaaggtcaacattcatatggagcattgtgtattaatgtatgctttacatgtctaaat-atggcttaatcactgcttctgatttttgtaacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAATGGTTCCA

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA09G38110.2 (Glycine max), 3'ss of exon 7
atggtatgctgtagagcaatttacctgttcatttttttccatggagacatt--tttgcatc--gctgaatca--ctgcttatttgctgattacttttaatctccagGGTGGTG---AAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
     |     ||  || ||||  ||  | |||  |||    | |     |  ||| || |  | ||||  |      || |     ||    | | ||| | |||||||| |   |||| ||||| ||||| ||||||||||| ||||||||||| || ||||| || || || || ||||||||||| ||||| ||||| || |   
-----aattaataaggctattt-tcttcttattcatttattggaacttgctactttacaccaagatgaagaaagtgatttttcaatcgaactttgtcaatatacagGGTGGAGGAGAAGAGGACAATTTTGCCATCGTGTTTGCAGCTATGGGAGTTAACATGGAGACTGCACAGTTTTTCAAACGTGACTTTGAGGAGAATGGCT---

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA10G42940.2 (Glycine max), 3'ss of exon 7
--atggtatgctgtagagcaatttacctgttcatttttttccatggagacatttttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
  || |    |||   |   |||||| |    | || ||| | |    || |||||| |  | ||||  | || || ||     ||  | | | ||   |||||||| ||||| ||||| |||||||| || ||||| ||||||||||| || ||||| || || || || ||||||||||| ||||| ||||| || ||||
gtatagctgactgcttaatcatttactta---aattctttacttctgtac-tttttgtaa-gatgaa--agtgatttttcaaaaataccatgttat--gcagGGTGGAGAAGAGGACAATTTTGCTATTGTATTTGCAGCTATGGGAGTTAACATGGAGACTGCACAGTTTTTCAAACGTGACTTTGAGGAGAATGGATCAA

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA18G48280.1 (Glycine max), 3'ss of exon 7
atggtatgctgtagagcaatttacctgttcatttttttccatggagacatt--tttgcatc--gctgaatca--ctgcttatttgctgattacttttaatctccagGGTGGTG---AAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
         |    |||   ||  ||  | |||  |||    | |    ||  ||| ||    | ||||  |    | || |      | |  | | ||| | |||||||| |   |||| ||||| ||||| || |||||||| ||||||||||| || ||||| || || || || ||||||||||| ||||| || || || ||  
-------attaataagcctattttcttcttattcatttattggaacttgttactttacactaagatgaagaaagtggtttttccatctaattttgtcaatatacaggGTGGAGGAGAAGAGGACAATTTTGCCATTGTGTTTGCAGCTATGGGAGTTAACATGGAGACTGCACAGTTTTTCAAACGTGACTTTGAGGAAAATGGCTC--

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA20G24070.1 (Glycine max), 3'ss of exon 8
atggtatgctgtagagcaatttacctgttcatttttttccatggagac---atttttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
 |  | | ||  |||   ||||   || | | |  ||| | |  |  |   | || || |   ||       ||   | |   |  | ||   || | |  ||||||| ||||| ||||| |||||||| |||||||| ||||||||||| || ||||| || || || || ||||| ||||| ||||| ||||| || ||||
cttatttccttcagatttattt--ttgcttaatcgtttacttaaactctctacttctgtacttcttgtaagatgaa-agtaatttttcacaaatactatgtagGGTGGAGAAGAGGACAATTTTGCTATTGTGTTTGCAGCTATGGGAGTTAACATGGAGACTGCACAGTTTTTCAAGCGTGACTTTGAGGAGAATGGATCAA

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 7
atggtatgctgtagagcaatttacctgttcattttt-ttccatggagacattt-ttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
  | | |  |  | |   | || | ||||  |     ||||      || ||   ||  ||     ||||  | || ||| || |||  | |   | |||||| |  || ||| ||||| ||||| || |||||||| |||||||| ||||| ||||| ||||| || |||||||| || ||||||||||| || || ||||
-agttgttgtcaaaattgaatttcttgtttgtagacattcctcttcaacgttggctgtctcataatatcaaggattcttt-ctcattcttgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTGTTTGCAGCTATGGGTGTGAACATGGAGACAGCTCAGTTCTTCAAGCGAGATTTTGAAGAAAATGGATCAA

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: AT1G20260.1 (Arabidopsis thaliana), 3'ss of exon 7
----atggtatgctgtagagcaatttacctgttcatttttttccatggagacatttttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
        |    || |||   || || | ||   | | |            | |||||  | |||   | |   ||   ||  | |  | | |   | |||||| |  || ||| ||||| ||||| || || ||||| |||||||| || || ||||| ||||| || || ||||| |||||||||||||| || || || |
tactcaacttctatgaagattgatatagcagtcagtctctcaattcctgtgtagttttgt-ttgctttgtaa--actccattattaac-attgtgtttttccagGATCATGGAGAGGACAATTTTGCAATTGTTTTTGCAGCTATGGGTGTAAACATGGAGACAGCTCAGTTTTTCAAGCGTGATTTTGAAGAAAATGGATCGA

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 7
atggtatgctgtagagcaatttacctgttcatttttttccatggagacatttttgcatcgctgaatcac-tgcttatt-tgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
   ||    |   |  | |      ||| || || | |            ||||   |   | ||  |  |  || |  |  |  || | || | | |  ||| ||  | ||| ||||| || || ||||| ||||||||||||||||| || ||||||||||| ||||| || || ||||||||||| || || || || |
-ccgttcatttctgtcctaccc-tttgtccacttctgttttatatttttcttttatctgattaaaatatgtaattctcatattatttgccttgagtttatagGATGAGGTAGAGGACAATTTCGCCATCGTCTTTGCTGCTATGGGAGTAAACATGGAAACAGCACAATTTTTTAAGCGTGATTTTGAGGAAAATGGATCCA

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 3'ss of exon 7
atggtatgctgtagagcaatttacctgttcatttttttccatggagacatttttgcatcgctgaa-tcactgct---tatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
     ||| |  |   | |||||  |  |  || ||||   |     | ||||  ||    |||| |  ||      |||    |   |||||||||  | |||| ||  ||||| ||||||||||| || || ||||| ||||||||||| || ||||| || || || || || ||||||||||| || || || || ||||
----gatgttaaatgaccatttatttcctttttattttattttctttctttttatcaattttgaacttgctatgagatatcatttttctacttttaacttgcagGATGTGGAAGAGGACAACTTTGCCATTGTTTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAA

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 3'ss of exon 6
atggtatgctgtagagcaatttacctgttcatttttttccatggagacatttttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA-----------------------------
                                                                                                   |   ||||||   |||||||||  |||||| || |||||||||||||| || ||||| |||||    ||||||||||||||||| ||||| || || || |                             
---------------------------------------------------------------------------------------------------gcccggtgaa---gacaacttttgtatcgttttcgctgctatgggagTTAACATGGAGACAGCTACTTTCTTCAAACGTGATTTCGAAGAAAATGGATCTATGGAGAGAGTGACACTTTTTCTCAACTTG

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: EFJ11911 (Selaginella moellendorffii), 3'ss of exon 6
atggtatgctgtagagcaatttacctgttcatttttttccatggagacatttttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
                          || || || ||| |       | | | |   | | |||  |          || ||| |   |||  | ||||| ||| ||  || ||||||||||| ||||| ||||| |||||||| ||||| ||||| || || || || |||||| | |||||||| || || || || |
--------------------------gtacaattgttttccgtttatcttctgtctgttgttgagac----------tgatgagtttctttcgtatccagCGTGATGTTGAAGACAACTTTGCAATCGTCTTTGCAGCTATGGGTGTGAACATGGAGACTGCACAGTTTTTCAAAAGGGATTTTGAGGAAAATGGATCGA

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 7
lower sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 6
atggtatgctgtagagcaatttacctgttcatttttttccatggagacatttttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
                          || | ||| ||| |       | | | |   | | |||  |          || ||| |   |||  | ||||| ||| ||  || ||||||||||| ||||| ||||| |||||||| ||||| ||||| || || || || |||||| | |||||||| || || || || |
--------------------------gtacttttgttttccgtttatcttctgtctgttgttgagac----------tgatgagtttctttcgtatccagCGTGATGTTGAAGACAACTTTGCAATCGTCTTTGCAGCTATGGGTGTGAACATGGAGACTGCACAGTTTTTCAAAAGAGATTTTGAGGAAAATGGATCGA

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|42591928|gb|CK738414.1|CK738414
EST:     GTCCTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|428226|gb|D24374.1|D24374
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGT
EST: gi|33798187|gb|CF324953.1|CF324953
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|58685054|gb|CK073741.1|CK073741
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29668004|gb|CB664279.1|CB664279
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29641774|gb|CB646781.1|CB646781
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|58675652|gb|CK064339.1|CK064339
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|33793646|gb|CF322707.1|CF322707
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29683215|gb|CB679490.1|CB679490
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29630856|gb|CB635865.1|CB635865
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29617703|gb|CB622715.1|CB622715
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|33675121|gb|CF303360.1|CF303360
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29675287|gb|CB671562.1|CB671562
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|300215980|gb|HO088606.1|HO088606
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29669854|gb|CB666129.1|CB666129
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACCTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|33676278|gb|CF304517.1|CF304517
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29630446|gb|CB635455.1|CB635455
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGG
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGG
EST: gi|218488188|gb|FG959862.1|FG959862
EST:     TCGTCAGGCTGGCC-TGCTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTCGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: TCGTCAGGCTGGCCTTG-TGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29681069|gb|CB677344.1|CB677344
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29665772|gb|CB662047.1|CB662047
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
EST: gi|29642143|gb|CB647150.1|CB647150
EST:     GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT
genomic: GTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAAT

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: 75 (upstream exon), 75 (downstream exon)
Score: 168

CCTCTTTTCTGCTGCTGGTCTTCCTCATAATGAAATTGCTGCCCAAATTTGTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagc ... taatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacatttttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA
                                          ttttaat  putative branch site (score: 168)
                                      ttactttt  CT-rich tract
                                   tgattacttttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atggtatgctgtagagcaatttacctgttcatttttttccatggagacatttttgcatcgctgaatcactgcttatttgctgattacttttaatctccagGGTGGTGAAGATGACAACTTTGCTATCGTGTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - tatgctg
- - - - - - - - - - - -cctgttc
- - - - - - - - - - - - - - - - - - ttccatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgctta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgat