Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtaactgtgtgaagtttacccatatgtttttttagactctggctagttggggtttaccaaggcagattggttaattgaatcattttgatcacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCAACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAAGAAGGTTCTGTGCAT

Basic information

species Oryza sativa
transcript LOC_Os08g44450.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g44450.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G074769_T01 (Zea mays), 3'ss of exon 3
agtaactgtgtgaagtttacccatatgtttttttagactctggctagttggggtttaccaaggcagattggttaattgaatcattttgatcacact---gcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCAACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAAGAAGGTTCTGTGCAT
    |     |    ||    |   |  | ||     || | ||||  || ||| | |   | | |    | | |||||||||| |||||  ||||   |||||||||||||| ||  |||| ||||||||||| || || ||||||||||| || |||||||| |||||||||||||| || |||||||| || || |||||
---gatgacatactcttggagctgttcatcttgagagcttttgctatatgtggtctgctttgcctgcccagctgattgaatcatgttgatatcactcctgcagGCAAGTTCCCCACTCTGGTCACTCACCAGGAATCCCTGGAATCCAAGGTGAATGAGACGAAGGCTACAGTCAAGTTTCAACTGAAGAAAGTCCTTTGCAT

upper sequence: LOC_Os08g44450.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G369991_T01 (Zea mays), 3'ss of exon 3
agtaactgtgtgaagtttacccatatgtttttttagactctggctagttggggtttaccaaggcagattggttaattgaatcattttgatcacact---gcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCAACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAAGAAGGTTCTGTGCAT
    |     |    ||    |   |  | ||     || |  |||  || ||| | |   | | |    | | |||||||||| |||||  ||||   |||||||||||||| ||  |||| ||||||||||| || || ||||||||||| || |||||||| |||||||||||||| || |||||||| || || |||||
---gatgacatactcttggagctgttcatcttgagagctttttctatatgtggtctgctttgcctgcccagctgattgaatcatgttgatatcactcctgcagGCAAGTTCCCCACTCTGGTCACTCACCAGGAATCCCTGGAATCCAAGGTGAATGAGACGAAGGCTACAGTCAAGTTTCAACTGAAGAAAGTCCTTTGCAT

upper sequence: LOC_Os08g44450.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G181194_T01 (Zea mays), 3'ss of exon 4
agtaactgtgtgaagtttacccatatgtttttttaga---ctctggctagttggggtttaccaaggcagattggttaattgaatcattttgatcacact---gcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCAACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAAGAAGGTTCTGTGCAT
        ||  |   |     |  ||||  | | ||   || | ||||  || ||| | |   | | |    | | |||||||||| |||||  ||||   |||||||||||||| ||  |||| ||||||||||| || || ||||||||||| || |||||||| |||||||||||||| || |||||||| || || |||||
------gatgacatactcttggagctgttcatctggatagcttttgctatatgtggtctgctttgcctgcccagctgattgaatcatgttgatatcactcctgcagGCAAGTTCCCCACTCTGGTCACTCACCAGGAATCCCTGGAATCCAAGGTGAATGAGACGAAGGCTACAGTCAAGTTTCAACTGAAGAAAGTCCTTTGCAT

upper sequence: LOC_Os08g44450.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G170561_T01 (Zea mays), 3'ss of exon 5
agtaactgtgtgaagtttacccatatgtttttttaga---ctctggctagttggggtttaccaaggcagattggttaattgaatcattttgatcacactgc---agGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCAACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAAGAAGGTTCTGTGCAT
        ||  |   |     |  ||||  | ||||   || | ||||  || ||| | |   | | |    | | |||||||||| |||||  |||| |   |||||||||||| ||  |||| ||||||||||| || || ||||||||||| || |||||||| |||||||||||||| || |||||||| || || |||||
------gatgacatactcttggagctgttcatctagagagcttttgctatatgtggtctgctttgcctgcccagctgattgaatcatgttgatatcactccttcagGCAAGTTCCCCACTCTGGTCACTCACCAGGAATCCCTGGAATCCAAGGTGAATGAGACGAAGGCTACAGTCAAGTTTCAACTGAAGAAAGTCCTTTGCAT

upper sequence: LOC_Os08g44450.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G144387_T01 (Zea mays), 3'ss of exon 4
agtaactgtgtgaagtttacccata-tgtttttttag-actctggctagttggggtttaccaaggcagattggttaattgaatcattttgat--cac-actgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCAACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAAGAAGGTTCTGTGCAT
          || | | |      | ||  | |  ||  || | ||||  |  ||| | |   | | |    | | || ||||||| |||||  ||| ||||||||||||||||| ||  |||||||||||||||| || || || |||||||| |||||||| || || || |||||||||||||| ||||||||||| |||||
-----tgacatgtactctgggagcagtgcatctggagtgcttttgctatgtatggtctgcattgtctgccctgctgatagaatcatgttgatatcactactgcagGCAAGTTCCCGACCCTGGTTACTCACCAGGAATCCCTCGAGTCCAAGGTGAACGAGACTAAGGCAACCGTCAAGTTCCAGCTCAAGAAGGTTCTTTGCAT

upper sequence: LOC_Os08g44450.3 (Oryza sativa), 3'ss of exon 1
lower sequence: EDP07503 (Chlamydomonas reinhardtii), 3'ss of exon 3
agtaactgtgtgaagtttacccatatgtttttttag-actctggctagttggggtttaccaaggcagattggtta-attgaatcattttgatcacactgcagGCAAGTTCCCTACATTGGTTACT-CACCAGGAGTCTCTTGAATCCAAGGTCA-ACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAA-GAAGGTTCTGTGCAT-
       | |  |   ||   ||     | || ||| ||     |  ||    |    ||  | | |    |       |        |       |      || || |   |||     | |  || || |   |   ||||      |     |  |      ||    | |||  |     |||  || ||     | | | 
------agcgccagacttgaacaccaaatattgtagcacaaccacaggtccctgaccgccctgcccgccctgccgtgccgcgcttgccttgctcttccctgcacagGTGCTGGACACCAAGTGCAGCATCAAGTTCCAGCTGAAGAAGGTGCTGTGCATGGGCGTGGCCGTGGCCAACGTGGGCATGACCGAGGGCGAGATCCGTA

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|33690336|gb|CF318575.1|CF318575
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|58596330|gb|CK006858.1|CK006858
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAA
EST: gi|33800481|gb|CF326110.1|CF326110
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|88239937|gb|CI239099.1|CI239099
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|29637359|gb|CB642368.1|CB642368
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|87024927|gb|CI261436.1|CI261436
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|58604026|gb|CK014554.1|CK014554
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|58679944|gb|CK068631.1|CK068631
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|88217543|gb|CI217392.1|CI217392
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|33664248|gb|CF295215.1|CF295215
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|38474392|gb|CF958524.1|CF958524
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATC
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATC
EST: gi|7332384|gb|AU085730.1|AU085730
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|86512579|gb|CI155212.1|CI155212
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|218495789|gb|FG952983.1|FG952983
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|218502837|gb|FG950277.1|FG950277
EST:     ATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTC
genomic: ATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAA-GGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTC
EST: gi|86866953|gb|CI343813.1|CI343813
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|86532320|gb|CI172526.1|CI172526
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|89195029|gb|CI051142.1|CI051142
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|86507716|gb|CI150349.1|CI150349
EST:     CATCATCAAGCAGATTCCTCGTCTCGTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|38483017|gb|CF966819.1|CF966819
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|33811047|gb|CF331414.1|CF331414
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|33821233|gb|CF336425.1|CF336425
EST:     GGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: GGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|58594107|gb|CF992415.1|CF992415
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|29687000|gb|CB683275.1|CB683275
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|58588784|gb|CF987092.1|CF987092
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|25807648|gb|CA763609.1|CA763609
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|86822948|gb|CI251956.1|CI251956
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGTATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|218497208|gb|FG946438.1|FG946438
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATC
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATC
EST: gi|88974536|gb|CI022077.1|CI022077
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|86601353|gb|CI251727.1|CI251727
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|27577252|gb|CA999946.1|CA999946
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|86416466|gb|CI030477.1|CI030477
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|58595844|gb|CK006372.1|CK006372
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|27554610|gb|CA998510.1|CA998510
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
EST: gi|58694951|gb|CK083638.1|CK083638
EST:     CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAG                         GCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA
genomic: CATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCA

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: 74 (upstream exon), 75 (downstream exon)
Score: 103

CTGGTTAAGAAGCTTGCCAAGAAGTACCATGCTTTCTTAGCATCAGAGGCCATCATCAAGCAGATTCCTCGTCTCCTTGGTCCTGGTCTCAACAAGGCAGgcaagtattc ... cacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCAACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAAGAAGGTTCTGTGCAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttggggtttaccaaggcagattggttaattgaatcattttgatcacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCAACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAAGAAGGTTCTGTGCAT
                                      ttttgat  putative branch site (score: 103)
                          ttaattgaatcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtaactgtgtgaagtttacccatatgtttttttagactctggctagttggggtttaccaaggcagattggttaattgaatcattttgatcacactgcagGCAAGTTCCCTACATTGGTTACTCACCAGGAGTCTCTTGAATCCAAGGTCAACGAGACGAAAGCTACAGTCAAGTTCCAGCTGAAGAAGGTTCTGTGCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - -ctgtgtg
- - - - - - - - - - -catatgt