Skip to another splice site:
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 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttactgcacaatctccctgtgctaaattcagagtaaaaatgtaaagcagtcaggttaagcaagagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC

Basic information

species Oryza sativa
transcript LOC_Os03g58040.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G178415_T05 (Zea mays), 3'ss of exon 9
gtaagttactgcacaatctccctgtgctaaattcagagtaaaaatgtaaagcagtcaggttaagcaagagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
|| |||  || | |  |  |||  ||  |    | | |      |    |  |   ||    |    ||   | |  | || |    |  |   |  | | || |||||||||||| ||||| |||||||||||||| |||||||| |||   ||||||  ||| |||||||| || |  ||| |||| |||||| |||||||| ||||||
gtcagtagct-cgctcttgcccactgtgag---ccgtgcttccttacggactacatag---cactgtgaatttaacccgtgga--caccacacgtgctttcgtctgttcagAACATCCAGGGGTTCATGTGGGACGAAGAGAAGGTAAACGCGGAGCTGCGGACGTACATGACGCGCGCCTTCGGGGACGTGAAGCAGATGTGCCGGAGCC

upper sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA16G26940.1 (Glycine max), 3'ss of exon 8
gtaagttactgcacaatctccctgtgctaaattcaga-gtaaaaatgtaaagcagtcaggt-taagcaagagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
             || | |    || | ||||||      | | |||| || |       | ||| ||  | |  |||  || ||        | |  || ||       ||||||||||| || ||||||||||| ||||||||||||||||| ||||| ||||| ||||||||    |||||||  |||||||||||||||||||  | ||
------------tcactttagtggttccaaattcttttacatatatgttaatccacttcatgtaaccattataaggata-attaaatgatgattataattatgtaacacacagAACATTCAAGGGTTCATGTGGGATGAGGAGAAGGTGAACAACGAGCTAAAGACATACATGACTAAAGGGTTCAAAGATGTGAAGGAGATGTGCAAAACCC

upper sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 8
gtaagttactgcacaatctccctgtgctaaattcagagtaaaaatgtaaagcagtcaggttaagcaagagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
       | ||| || | |    |   |  |  |    |  | | || ||  | | |   ||  | |   | |    | | |    | || || | ||||||      |||||||| || |||||||||||||| |||||||| |||||||||||||| |||||||||||||||   || ||||  ||||||||||| |||||||  | ||
-----aaattgctcattttagaggaattgcacccctgctgtacaggttaattaattaatatactccatgtagt----ccttacatggttggtgattttgtggc--acacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAGACCTACATGACCAAAGGTTTCAAAGATGTGAAGGAAATGTGCAAAACCC

upper sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA02G07940.1 (Glycine max), 3'ss of exon 9
gtaagttactgcacaatctccctgtgctaaattcagagtaaaaatgtaaagcagtcaggttaagcaagagactgatgcatgaagctgctgctg-ttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
         | |   |       |   |  ||| | | | | ||| ||    |  |   || |   |   | | | |  | ||     || || || || ||   ||  ||||||||||| || ||||||||||| ||||||||||||||||| ||||| ||||| |||||||||   |||||||  ||||||||||| |||||||  | ||
---------tacttgagtggttcgaaattcatttacatttacaat-tatgttaacccacttcatgtaatcattaagg--ttaattaaatgatgattattatgtaatgcacagAACATTCAAGGGTTCATGTGGGATGAGGAGAAGGTGAACAACGAGCTAAAGACATACATGACCAAAGGGTTCAAAGATGTGAAGGAAATGTGCAAAACCC

upper sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA16G04560.2 (Glycine max), 3'ss of exon 9
gtaagttactgcacaatctccctgtgctaaattcagagtaaaaatgtaaagcagtcaggttaagcaa-gagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
       | ||| || | |    |   |  || |  | |  | |  | ||  | | |   ||  | | |   |   | ||||     | || || | |||||       |||||||| || |||||||||||||| |||||||| |||||||||||||| |||||||||||||||   || ||||  ||||||||||| |||||||  | ||
-----aaattgctcattttagaggaattgcatccttattgtacaaattaattaattaatataccctatgtagcccttacatg-----gttggtgattttgtgac--acacagAACATCCAAGGTTTCATGTGGGATGAGGAGAAAGTGAACAATGAGCTAAAGACCTACATGACCAAAGGTTTCAAAGATGTGAAGGAAATGTGCAAAACCC

upper sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 9
lower sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagttactgcacaatctccctgtgctaaattcagag--taaaaatgtaaagcagtcaggttaagcaagagactgatgcatgaagctgctgctgt-tcttgtggtt-tgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
                         |  | | ||  |    || | ||||   |   |   |  |     |  |   |  || ||    ||| | | | || |   | |||  ||||||| || || ||||||||||| ||||| |||||||| |  ||||| |||||||||||||| || |||||||  ||  |||| || |||||   ||  |
-------------------------gtaagactcgaaaatcaagactgtatgac---ctaatcgaatctaaagccactcgatcaaaacactgatttgtgttatatctgtgtgaagAACATACAAGGATTCATGTGGGATGAGGAAAAGGTGAATAGGGAGCTAAAGACCTACATGACTCGCGGGTTCAAAGACTTGAAAGAAATGTGTCAGACGC

upper sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 9
lower sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagttactgcacaatctccctgtgctaaattcagagtaaaaatgtaaagcagtcaggttaagcaagagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
    ||   |    | |||| |       || | |   |  | |    ||| | ||     || |  ||   ||||      || || | | | |  ||||       ||||||||||| || || |||||||| || |||||||||||| ||||||| ||||| |||||||| ||    |||| |||  |||| ||||||||||  |  |
----gtatgtatg-agtctctcaac----aacttacctttgacagaccaagtactcgaacaaaacc-gattttgatcagattagttgtttccggtaatgtg-------cagAACATTCAAGGCTTTATGTGGGAGGAAGAGAAGGTGAACGATGAGCTAAAGACTTACATGACTCGCTCTTTCAAGGACTTGAAAGAGATGTGCAAAACTC

upper sequence: LOC_Os03g58040.3 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 10
gtaagttactgcacaatctccctgtgctaaattcagagtaaaaatgtaaagcagtcaggttaagcaagagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
    | | ||  |           || | ||||     ||||||   | |        |  |  ||   |  || |   | || ||   | || | |||||  |||  ||||||||||| |||||||||||||| |||||||| || |||||||| |||  ||| ||||||||| | |||||||  |||||||||||||||||||| | ||
---tgatgctagagctgtaatgaatgttgaatttt--ataaaaactgacaatgaatgtgc-acacatttgcatggta-gtaaaact--cggtggttttgtgacttg--cagAACATTCAAGGTTTCATGTGGGATGAGGAGAAAGTAAACAATGAACTGCGGACGTACATGACCAGAGGGTTCAAAGATGTGAAGGAGATGTGCAGAACCC

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|86413760|gb|CI067967.1|CI067967
EST:     TCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88831027|gb|CI080451.1|CI080451
EST:     TTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88830774|gb|CI079208.1|CI079208
EST:     CGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: CGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86600065|gb|CI258405.1|CI258405
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCTG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88222694|gb|CI220835.1|CI220835
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88219022|gb|CI220582.1|CI220582
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|58680379|gb|CK069066.1|CK069066
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTG
EST: gi|88243792|gb|CI242914.1|CI242914
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|38472486|gb|CF956618.1|CF956618
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGTTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|163920099|gb|EG712029.1|EG712029
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88217782|gb|CI217631.1|CI217631
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86495469|gb|CI138102.1|CI138102
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86427924|gb|CI073021.1|CI073021
EST:     TCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|286451|gb|D15259.1|D15259
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGANGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86884629|gb|CI313008.1|CI313008
EST:     CGAGT-GGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: CGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|87029298|gb|CI250231.1|CI250231
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGCTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86823598|gb|CI258678.1|CI258678
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCTG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|89186782|gb|CI052195.1|CI052195
EST:     CCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: CCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|33657938|gb|CF280552.1|CF280552
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|89194432|gb|CI116869.1|CI116869
EST:     CTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: CTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|33658194|gb|CF280808.1|CF280808
EST:     GTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: GTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88903728|gb|CI089266.1|CI089266
EST:     TCCTCGTGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86413329|gb|CI067734.1|CI067734
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|29674432|gb|CB670707.1|CB670707
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGATACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86594959|gb|CI258213.1|CI258213
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86427712|gb|CI072809.1|CI072809
EST:     TCCTCGTGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88840508|gb|CI079962.1|CI079962
EST:     TCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86432637|gb|CI086248.1|CI086248
EST:     CCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: CCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|8527504|gb|AU092319.1|AU092319
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|66919027|gb|CX105875.1|CX105875
EST:     CGCGAA-TCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGATTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: CGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|58593842|gb|CF992150.1|CF992150
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGATTTCATGTGGGACGAGGAGAAGGGGAACAATGAGCTGAA
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGG-TTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAA
EST: gi|3760756|gb|C98010.1|C98010
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88829653|gb|CI074523.1|CI074523
EST:     GTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: GTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88964890|gb|CI084888.1|CI084888
EST:     TTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86594966|gb|CI258220.1|CI258220
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACCATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88955378|gb|CI091470.1|CI091470
EST:     GGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: GGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|88955867|gb|CI092155.1|CI092155
EST:     CCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: CCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|13420757|gb|AU174847.1|AU174847
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|86435976|gb|CI107209.1|CI107209
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|29679311|gb|CB675586.1|CB675586
EST:     TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: TCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
EST: gi|87008623|gb|CI315081.1|CI315081
EST:     CGAACTCCGGT-GTGTCACAGTGAGCTACTTGGAGTGGGTTCAG                         AACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG
genomic: CGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAG

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: 70 (upstream exon), 75 (downstream exon)
Score: 56

ATCCTGTCCAAGAAAGGCGTTCTCATTCTTCCAGACATCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAGgtaagttact ... gtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggttaagcaagagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC
             gactgat  putative branch site (score: 56)
                                              tttgttc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttactgcacaatctccctgtgctaaattcagagtaaaaatgtaaagcagtcaggttaagcaagagactgatgcatgaagctgctgctgttcttgtggtttgttcagAACATTCAGGGTTTCATGTGGGACGAGGAGAAGGTGAACAATGAGCTGAAGACCTACATGACCCGTGGGTTCAGGGATGTGAAGGAGATGTGCAGGAGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG