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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctgtaggtcttctctaacaacagcgcattcttttccatagagttgcttctcttggctatctaatttatttccacgtcccacaacatttctctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA

Basic information

species Zea mays
transcript GRMZM2G071010_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G071010_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT3G52560.1 (Arabidopsis thaliana), 3'ss of exon 2
tctgtaggtcttctctaacaacagcgcattcttttccata-gagttgcttctcttggctatctaatttatttcca-cgtcccacaacatttctctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA
    | | |||| || |   |||     ||    |  ||  |||  | || |      | |    |||  ||  |    |  | |  | || | | |  |||||||| ||||| ||| | ||||| ||| ||||| | ||||||||||| || || |||||||| || ||| ||||| ||||||| ||| |  |||||||| 
-gcattgatcttatcgacatacaatctcttaagctttatttgagcagattatgcca-ttgttgcttttgcttgtagtaacagagataaattttatgtcacagACTGTTCATGAAGGTAGAATCTATCAGTTGAAGCTCTTTTGTGACAAAGATTACCCGGAGAAACCTCCAACTGTCCGATTCCATTCACGTGTCAACATGG

upper sequence: GRMZM2G071010_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0080g01080.t01 (Vitis vinifera), 3'ss of exon 2
tctgtaggtcttctctaacaacagcgcattcttttccatagagttgcttctcttggctatctaatttatttccacgtcccacaacatttct-----ctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA
     || | || | |    | |||  ||||  |    ||   |   |||||    ||||  |      ||  | || |   |||  || |     |||| |||| |||||||||| |||||||| || || |||||| | |||||||| || || |||||||||||||| ||   |||  | ||||| ||| | ||||||||||
----aagattttgtgtt-tgatagcttattccatcgtgtatcatgtattctcacatctatacatacagattttatgttcattaactattttaattactttttcagTCTGTACATGAAGGTCGCATTTATCAACTGAAGCTTTTTTGTGATAAAGATTATCCGGAGAAGCCTCCTAGTGTACGGTTCCATTCACGCATCAACATGA

upper sequence: GRMZM2G071010_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv08s0007g02580.t01 (Vitis vinifera), 3'ss of exon 2
tctgtaggtcttctctaacaacagcgcattcttttccatagagttgcttctcttggctatctaatttatttccacgtcccacaacatttctctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA
|     |   |   |||        |  ||   ||        |||||  | | |      ||          ||   |  |  | ||  | ||| ||||||||||||||| |||||||| || ||| ||||| |||| |||||||| || ||||| ||||||||||||  |||| | || || ||| | ||||||||||
tagaatgaaatgtactattgttgaggttttggattttgacttcttgctgatatggatagcttacaagcacattacaatcttctcctttattttttttcagACTGTACATGAAGGTCGCATATATCAGTTGAAGCTGTTCTGTGACAAAGATTATCCAGAGAAGCCACCAAGTGTCCGTTTTCATTCACGGATCAACATGA

upper sequence: GRMZM2G071010_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S60_129V6.1 (Physcomitrella patens), 3'ss of exon 3
tctgtaggtcttctcta-acaacagcgcattcttttccatagagttgcttctcttggctatctaatttatttccacgtcccacaacatttctctttgt-cagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA
   ||   |  | | ||     | |||||   |            | |   | ||   || || | || |   |    |   ||| | | || ||||| ||| |||| || || ||||| ||||||    ||||||| ||||| |||||||||||||| || ||||| ||| |||| |||||||||||  ||||||| ||||
-tggttcatgatgtgtatgtttctgcgcagcttaagttgcctccatcccaatgttttgtaactgagttgtcatcgacacattcaa-actgctttttgtgcagTCTGTCCACGAAGGTCGGATCTACACATTGAAGTTATTTTGCGACAAGGACTATCCCGACAAGCCTCCAACTGTTAGATTCCACTCCCGAATCAATATGA

upper sequence: GRMZM2G071010_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ15952 (Selaginella moellendorffii), 3'ss of exon 2
tctgtaggtcttctctaacaacagcgcattcttttccatagagttgcttctcttggctatctaatttatttccacgtcccacaacatttctctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA
       ||| ||| |          | |||||| |  |     |||      || || | |   || |||     || ||     ||  ||| || ||| |||| || || || ||||| || ||||| |||||||  || ||||| ||||||||||| |||||||||  |||  ||||||| ||  ||||||||||||
-------gtcctctttc-ttttttttctttctttgctcttacaatgcac----tgactctttcgctttttttttt-tctcat----ttattctgtg-cagTCTGTTCACGAAGGACGCATTTATCAGCTTAAGTTGTACTGCGACAAAGACTATCCGGATAAGCCACCAAGTGTGCGATTCCATTCGCGAATCAACATGA

upper sequence: GRMZM2G071010_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ16450 (Selaginella moellendorffii), 3'ss of exon 2
----------------tctgtaggtcttctctaacaacag-cgcattcttttccatagagttgcttctcttggctatctaatttatttccacgtccc--------acaacatttctct-ttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA
                 || | | | ||  |   |      |    ||  | | | | ||| |||| | ||   | | || ||  | |   | || |        | |||| || | |  || ||| |  | || || || || ||||| || || ||||||||||| |||||||| |||||||| ||||||||    || | ||||   || |||||||||||||
gtgagcttttctttttcctttggatttttgcgttcggtgttcttgctccgtgctaca-agtggcttgtattctttttttatttcttgtgtgcttctctgacgcgtagaacacttgtttgctggcagTCCATTCACGACGGCCGGATCTATCAACTTAAGTTGTTTTGCGACAAGGAGTATCCGGACAAGCCACCGAGCGTGAAATTCATGTCGAGAATCAACATGA

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|89756017|gb|DY686217.1|DY686217
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211058482|gb|FL105767.1|FL105767
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211049579|gb|FL105709.1|FL105709
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|91874027|gb|EB403984.1|EB403984
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTGGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211432640|gb|FL105621.1|FL105621
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|9733380|gb|BE512237.1|BE512237
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211058470|gb|FL105755.1|FL105755
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|93013912|gb|EB639432.1|EB639432
EST:     ATCATTGGCCCTCCCAAT                         ACTGTACAGGAGGGTGGCATCTACCAGCGGAAGTTGTTTTGTGACAAGGAC
genomic: ATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211049587|gb|FL105717.1|FL105717
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAKGGTCGCATCTACCAGCTTGAAGTTGTTTTGTGACAAGKG
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCT-GAAGTTGTTTTGTGACAAG-G
EST: gi|211435244|gb|FL105634.1|FL105634
EST:     TGACATCTACATGCGGTCATGGACTGGTACCATCAATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: TGACATCTACATGCGGTCATGGACTGGTACCATCA-TTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211435250|gb|FL105640.1|FL105640
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|15554192|gb|BI644190.1|BI644190
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211430043|gb|FL105610.1|FL105610
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGGTACATGAGGGTCGCATCTACCAAGCTGAAGTTGTTTTGTGACAAGG
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTG-TACATGAGGGTCGCATCTACCA-GCTGAAGTTGTTTTGTGACAAGG
EST: gi|211432637|gb|FL105618.1|FL105618
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211043657|gb|FL105681.1|FL105681
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|213192471|gb|FM190893.1|FM190893
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211052550|gb|FL105735.1|FL105735
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211052549|gb|FL105734.1|FL105734
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|32857652|gb|CD997333.1|CD997333
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGGATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211061440|gb|FL105771.1|FL105771
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211435255|gb|FL105645.1|FL105645
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCMTCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|111433965|gb|EE298001.1|EE298001
EST:     TGACATCTACATGCGGTCATGGTACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: TGACATCTACATGCGGTCATGG-ACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|78081380|gb|DV509792.1|DV509792
EST:     ATGACATCTACATGCGGTCATGGACGGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|67042401|gb|CO468656.1|CO468656
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211058481|gb|FL105766.1|FL105766
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|9733381|gb|BE512238.1|BE512238
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|116829440|gb|EC867966.1|EC867966
EST:     ATGACATCTACACGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211043655|gb|FL105679.1|FL105679
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|32864479|gb|CF004161.1|CF004161
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211058480|gb|FL105765.1|FL105765
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTCTTTTCTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|32851339|gb|CD991020.1|CD991020
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211046627|gb|FL105703.1|FL105703
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|32908043|gb|CF012856.1|CF012856
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211437849|gb|FL105658.1|FL105658
EST:     ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGAC
EST: gi|211437842|gb|FL105651.1|FL105651
EST:     ATGACATCTWCATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAAT                         ACTGTACATGAGGGTCGCATCTACCA
genomic: ATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCA

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1009

AGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1514

AGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 1608

AGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 989

AGAGAAGGGCATTGGTGATGGAACAGTGAGCTATGGAATGGATGATGCCGATGACATCTACATGCGGTCATGGACTGGTACCATCATTGGCCCTCACAATgtgagaacac ... tctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttctcttggctatctaatttatttccacgtcccacaacatttctctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA
             atctaat  putative branch site (score: 989)
                                       catttctctttgtc  putative PPT
            tatctaatttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctgtaggtcttctctaacaacagcgcattcttttccatagagttgcttctcttggctatctaatttatttccacgtcccacaacatttctctttgtcagACTGTACATGAGGGTCGCATCTACCAGCTGAAGTTGTTTTGTGACAAGGACTATCCGGAGAAGCCACCATCTGTCAGATTCCACTCAAGAATCAACATGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - caacagc
- - - - - - - - - - - - -gcattct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacaac