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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcatatttctcctcttgaccatgcttttctcatttatttttgttgtcctgaaatggagaggaaaaaataactcacttgttttttttttaattttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA

Basic information

species Oryza sativa
transcript LOC_Os03g13800.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g13800.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM5G868062_T02 (Zea mays), 3'ss of exon 3
tgcatatttctcctcttgaccatg-cttttctcatttatttttgttgtcctgaaatggagaggaaaaaataactcacttgttttttttttaattttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA
||  ||     | |  |||| ||| |     ||||   |   | || | |  | |   |||   |  | |  || |    |||   || |  | |   |||||||| |||||||| ||||| || ||||| ||||| |||||||| || ||||| || || ||||| ||||||||||| |||||||||||||| ||||| |
tgt-tagcatacataatgactatggcagcattcatcattggatcttatgcaaacaaaaagattcaccattggctaataaatttgccttatggtatgtgcagAACGTCCCATATGTATTTGTTCCATCGAAACAAGCTCTTGGCCGTGCTTGTGGTGTGACAAGACCCGTCATTGCTTGCTCAGTGACCAGCAATGAGGGTA

upper sequence: LOC_Os03g13800.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G140799_T01 (Zea mays), 3'ss of exon 3
-tgcatatttctcctcttgaccatgcttttctcatttatttttgttgtcctgaaatggagaggaaaaaataactcacttgttttttttttaattttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA
   | | ||      |||||  |   |      ||  |    ||    | ||      | |   |  | | ||| |    |||    | |  | |   |||||||| |||||||| ||||| || ||||||||||| |||||||| || ||||| || || ||||| || |||||||| ||||||||||| || ||||| |
actcctgttagcatacttgatgaatatagcaaaatcaaccactgg-accttgtccaaaaaaatcaccattcactaataaatttgccctatgctgtgtgcagAACGTGCCATATGTGTTTGTTCCATCGAAGCAAGCTCTTGGCCGTGCTTGTGGTGTGACAAGACCGGTTATTGCTTGCTCAGTGACCAGTAATGAGGGTA

upper sequence: LOC_Os03g13800.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM5G868062_T04 (Zea mays), 3'ss of exon 3
-----tgcatatttctcctcttgaccatgcttttctcatttatttttgttgtcctgaaatggagaggaaaaaataactcacttgttttttttttaattttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA
      | |   | |  |       || || |||||    | ||||      | | |   | |     |  | |  || |    ||| || | |  | ||  |||||||| |||||||| ||||| || ||||| ||||| |||||||| || ||||| || || || |||||||||||||| |||||||||||||| ||||| |
gttaggggaggatgcatcaaacacacaagcatttct---atgttttcaaatccttcag--gcaacatcaccattggctaataaatttattctatgctatttgcagAACGTGCCATATGTATTTGTTCCATCGAAACAAGCTCTTGGCCGTGCTTGTGGTGTGACAAGGCCTGTCATTGCTTGCTCAGTGACCAGCAATGAGGGTA

upper sequence: LOC_Os03g13800.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT4G22380.1 (Arabidopsis thaliana), 3'ss of exon 1
tgcatatttctcctcttgaccatgcttttctcatttatttttgttgtcctgaaatgga--gaggaaaaaataactcacttgttttttttttaattttg-acagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA
   |  ||   |   |||| || ||||   |    |||    |   |  | |  |||   ||     || |||| |  || | |  | |  |  |     ||||| || |||||||| ||||| |||||||| |||||  | ||  | |||||||| || || |||||||| |||||||||||||||||    || ||||  |
-atagtttatcctatttgaacaagcttcatta--ctatacaagcaattattacgtggtctgattttgaactaacgcttttttgtactctccatctaaatgcagAATGTGCCATATGTGTTTGTACCTTCGAAACAAGCATTGGGAAGAGCATGTGGAGTAACAAGACCTGTTATTGCTTGTTCAGTGACATCGAATGAGGCAA

upper sequence: LOC_Os03g13800.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT5G20160.1 (Arabidopsis thaliana), 3'ss of exon 3
tgc-atatttctcctcttgaccatgcttttctcatttat-ttttgttgtcctgaaatggagaggaaaaaataactcacttgttttttttttaattttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA
|   || ||  |   ||||    |  ||   ||  | ||  |||||||| || | ||           |    || ||||  | ||| |  |  |||   |||| ||||| ||||| ||||| ||||| ||||||||| | ||  | || ||||| || ||||||||||| || ||||||||||| ||    ||||| |  |
tatgattttgtttagcttgtatgtttttgattctgtaatgctttgttgttcttatatactagttttctatattcttactt--tctttgtgaatgttttgtagAATGTTCCTTATGTCTTTGTGCCTTCAAAGCAAGCCTTGGGAAGAGCCTGTGGTGTGACTAGACCTGTTATCGCTTGTTCAGTCACATCTAACGAAGCTA

upper sequence: LOC_Os03g13800.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv11s0016g05140.t01 (Vitis vinifera), 3'ss of exon 3
tgcatatttctcctcttgaccatgcttttctcatttatttttgttgtc--ctgaaatggagaggaaaaaataactcacttgttttt-tttttaattttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA
    |        | ||    ||  |||    ||||  |||  |||     | | |   |    ||   ||   | ||  ||| |  || || | |||| ||||| || || ||||| ||||||||||| |||||||| |||||||| |||||||| || || || ||||||||||| ||||| ||||| ||||| ||||| |
---gttgaaacatttttatagatattttcagaattttgtttccttgctagttcagaataattataatgcattcataacaagttctgattcttgaatttggcagAATGTGCCTTATGTATTTGTCCCTTCAAAGCAAGCACTTGGCCGTGCATGTGGAGTCACAAGGCCTGTCATTGCCTGTTCGGTGACTAGCAATGAGGGAA

upper sequence: LOC_Os03g13800.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv13s0019g02650.t01 (Vitis vinifera), 3'ss of exon 3
--------------tgcatatttctcctcttgaccatgcttttctcatttatttttgttgtcctgaaatggagaggaaaaaataactcacttgttttttttttaattttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA
              |  ||  |     |  |  |||||  ||    |   |||| | |     |    ||||       ||  || |||||| |   |||  |     || ||||| || || ||||| ||||| ||||| || ||||| ||||| || |||||||| || || || || || ||||||||||| ||||| |||||||| || |
taggatatggaagttaaatggtgtgaattgtagccatgaattgagaacaaatttctttcactttc---tgga-------aaccaattcacttttaaatttcctg----tggcagAATGTGCCCTATGTATTTGTACCTTCAAAACAAGCACTTGGACGAGCATGTGGAGTCACAAGGCCAGTGATTGCTTGTTCTGTGACGAGCAACGAAGGAA

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|33688800|gb|CF317039.1|CF317039
EST:     CGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|33803441|gb|CF327595.1|CF327595
EST:     GGAGCCGCTCGAGATCCTTCTNCCACCT-CCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: GGAGCCGCTCGAGATCCTTCT-CCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|5004089|gb|AU069238.1|AU069238
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|163925672|gb|EG710837.1|EG710837
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|88966707|gb|CI365930.1|CI365930
EST:     CCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|33664461|gb|CF295428.1|CF295428
EST:     GCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: GCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|25802766|gb|CA758727.1|CA758727
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|15847926|gb|BI796202.1|BI796202
EST:     CGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|11171669|gb|AU163902.1|AU163902
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|88203244|gb|CI203093.1|CI203093
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|88212063|gb|CI211703.1|CI211703
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|33823600|gb|CF337607.1|CF337607
EST:     CGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|163925661|gb|EG710826.1|EG710826
EST:     CCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|33656379|gb|CF278993.1|CF278993
EST:     GGAGCCGCTCGAGATCCTTCTCCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: GGAGCCGCTCGAGATCCTTCT-CCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86855242|gb|CI265168.1|CI265168
EST:     CCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86508925|gb|CI151558.1|CI151558
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|33658062|gb|CF280676.1|CF280676
EST:     CGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86543166|gb|CI183372.1|CI183372
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86511049|gb|CI153682.1|CI153682
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86596035|gb|CI266538.1|CI266538
EST:     CGGGGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86526512|gb|CI166718.1|CI166718
EST:     CACCTCCCCCTGCTCTCGGAGGATAAG                         AACGTTCCATATGGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATG
genomic: CACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATAT-GTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATG
EST: gi|87025461|gb|CI267827.1|CI267827
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|55411014|gb|CV723390.1|CV723390
EST:     CCACCT-CCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|87022373|gb|CI267510.1|CI267510
EST:     CGGAGCCGCTCGAGGTCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|33656718|gb|CF279332.1|CF279332
EST:     CGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|88830036|gb|CI074708.1|CI074708
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86854100|gb|CI252091.1|CI252091
EST:     CGGAGCCGCTCGAGATCCTTCTCCACGTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|11172268|gb|AU164200.1|AU164200
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|88828720|gb|CI073590.1|CI073590
EST:     GCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: GCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|325494701|gb|JG459225.1|JG459225
EST:     CGGAGCCGATCGAGATCCTTCTCCAACTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATG
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATG
EST: gi|89181070|gb|CI045153.1|CI045153
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86538309|gb|CI178515.1|CI178515
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86878688|gb|CI340581.1|CI340581
EST:     CTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|88839933|gb|CI079387.1|CI079387
EST:     CCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCAATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86525200|gb|CI165406.1|CI165406
EST:     ATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: ATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|89176321|gb|CI043342.1|CI043342
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|86599893|gb|CI256055.1|CI256055
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|88241830|gb|CI241679.1|CI241679
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
EST: gi|88205819|gb|CI205668.1|CI205668
EST:     CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAG                         AACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT
genomic: CGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGT

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), 67 (downstream exon)
Score: 56

GAAGACCCTGAACAGGGGTATATCAGAGTTCGTGGTGATGGCGGCCGACACGGAGCCGCTCGAGATCCTTCTCCACCTCCCCCTGCTCGCGGAGGATAAGgtagtatttt ... attttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcctgaaatggagaggaaaaaataactcacttgttttttttttaattttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA
                                  ttttttttttaatttt  CT-rich tract
                 aaaaaataactcactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcatatttctcctcttgaccatgcttttctcatttatttttgttgtcctgaaatggagaggaaaaaataactcacttgttttttttttaattttgacagAACGTTCCATATGTTTTTGTCCCTTCGAAGCAAGCCCTTGGCCGCGCATGTGGCGTTACTAGACCTGTCATTGCTTGTTCAGTGACCAGCAACGAGGGCA

tgcatat
- - - - - - - - - -ccatgct
- - - - - - - - - - - - - - - - - - - - ttgttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaaa