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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatgtgtcctaactgcaaccctaccccctcccctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa...

Basic information

species Zea mays
transcript GRMZM2G181151_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 5'ss of exon 7
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaa-tgtgtc-ctaactgcaaccctaccccctcccctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa
||| |||||||||||||| || ||||| |||||||||||||| || || ||||||||||||||||||||||| |  ||||||||||| ||||||||||||||||| ||   | || || ||   ||    | |        |    ||  |   |  |||  |   ||| | |  |      | | ||  | |  || |   
CCTCTTTTCTGCTGCTGGTCTTCCTCATAATGAAATTGCTGCCCAAATTTGTCGTCAGGCTGGCCTTGTGAAAAGCTTGGAGAAAGGCAAGCATGCAGAGgtagccaagcatttctctcacataaagataatctgactatttgatgacccagtgagatttgggctcacatata--tagcttaataactttagttgtacatgg

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA09G38110.2 (Glycine max), 5'ss of exon 7
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAA---GGAAAGCATGCAGAGgtagctaatgtgtcctaactgcaaccctaccccctcccctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa--
   ||| || |||||||| ||||| || |||||||||||||| ||||| || |||||||||||| | || |||  | | || ||    |  || | |   ||||||  ||   |||  |||    ||    |   |||    ||  | |   | |   |       |    ||     |      ||    ||| |   |  |  
---ATTCTCAGCTGCTGGTCTCCCCCATAATGAAATTGCTGCACAGATATGCCGTCAGGCTGGCTTAGTCAAGCGACTAGAAAAGTCTGATAATCTTCTCGAGgtatatacaatgtattaaagtgaagtgaatttcctatgttaaatgc--tcctgaatcatgagttgaggacctcacattttgtattaatactttcttagcatc

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA18G48280.1 (Glycine max), 5'ss of exon 7
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAA---GGAAAGCATGCAGAGgtagctaatgtgtcctaac-tgcaaccctaccccctcccctacctacaaacatatttttcagagtacaaacagt-tgaacacacatctgcactcttaaaaaa
    || || |||||||| ||||| || |||||||||||||| ||||| || |||||||||||| | || |||  | | || ||    |  || | |   ||||||  ||    ||  |||  || |   |            | |||  ||  |||| |||  ||   || |   | |   || || |    |   ||   || 
----TTCTCAGCTGCTGGTCTCCCCCATAATGAAATTGCTGCACAGATATGCCGTCAGGCTGGCTTAGTCAAGCGACTAGAAAAGTCTGATAATCTTCTCGAGGtatatacaacgtattaaagtgaatttcctatgttaaatgtgcctg-aattatatgtttaggacctcacattttgtattcatactttcttagcattggcaat

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA20G24070.1 (Glycine max), 5'ss of exon 8
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAA---GGAAAGCATGCAGAGgtagctaatgtgtcctaactgcaaccctaccccctcccctacctacaaacatatttttcagagtacaaacagttgaacacac--atctgcactcttaaaaaa
   ||| || || ||||| ||||| || |||||||||||||| ||||||||||||||||||||| | || |||  | | ||||||   |  || | |   ||||||  ||  |  |      ||   || |    |          ||| |    | | |  |   ||  |   ||  ||||     ||||    |  |  | | 
---ATTCTCAGCAGCTGGTCTCCCCCATAATGAAATTGCTGCACAGATCTGTCGTCAGGCTGGCTTAGTCAAGCGACTAGAGAAATCTGATAATCTTCTTGAGgta--tagcggattgcttatggtgccttttgtcaaatatgtattactagttgactgtgaaatatatgacttgtaaaacagtttaatctctggttgtttagag

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA10G42940.2 (Glycine max), 5'ss of exon 7
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAA---GGAAAGCATGCAGAGgtagctaatgtgtcctaactgcaaccctaccccctcccctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa
   ||| || || || || ||||| || |||||||| ||||| ||||||||||||||||||||| | || |||  | | ||||||   |  || | |   ||||||          | |||       | ||    ||   || |        |  ||||  |   |  ||    ||   || | ||   |  | |||   | 
---ATTCTCAGCAGCCGGTCTCCCCCATAATGAAATCGCTGCACAGATCTGTCGTCAGGCTGGCTTAGTCAAGCGACTAGAGAAATCTGATAATCTTCTTGAGgtatagctgactgcttaatcatttacttaaattctttacttct-----gtactttttgtaagatgaaagtgatttttcaaaaat--accatgttatgcag

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 5'ss of exon 7
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatgtgtcctaact---gcaaccctaccccct-cccctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa---
    || ||||||||||| || || || |||||||| ||||||||||| |||||||||||||| || || |||   ||||| ||        ||  |   | || ||||   |  |||||    |||   || | | |    ||   ||| ||     || |  ||||   ||| |||      |||  ||   |  |  |      
---TTTCTCTGCTGCTGGTCTTCCACATAATGAAATAGCTGCTCAGATTTGTCGTCAGGCTGGTCTAGTCAAGCGTTTGGAAAAGACTGTTGATCTACTTG-AGgtaatcctttgtaacttgtacaaatatatctcttatttctctataccaaagctcttatttgagttgtaactgtt---tctacaagtgtgttgatggatgtgtg

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 8
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatgtgtcctaactgcaaccctaccccctcccc-tacctacaaacatatttttcagagtacaaacagt-------tgaacacacatctgcactcttaaaaaa
    |||||||| || || || || ||||||||||||||||||||||| || |||||||||||  | || |||   || |||||   | |  ||      | || ||    |   ||  | ||   ||   || |  |   |  |  |||    ||| | | | |   ||||||       |  |||   |     || | | | |  
---CTTTTCTGCCGCAGGTCTTCCCCACAATGAAATTGCTGCTCAGATTTGCCGTCAGGCTGGTTTGGTTAAGCGTTTAGAGAAGTCAGATAATCTTCTCG-AGgtatcacgattta--tacattactggtccgtgtctacagttggaaattggtttgttacaattataacagtgatcccttagacagttagacatacccattaca--

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: AT1G20260.1 (Arabidopsis thaliana), 5'ss of exon 7
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAG--GAAAGC---ATGCAG-AGgtagctaatgtgtcctaactgcaaccctaccccctcccctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa---
       ||||||||||| || ||||| ||||| ||||||||||| || |||||||||||||| |||||||||   ||||| ||    || | |   || ||| |||||  | || || || |    || | | ||       | |   |        |  | ||| |||  ||     ||      ||  | |||| |  ||      
------CTCTGCTGCTGGTCTACCTCATAATGAGATTGCTGCTCAAATTTGTCGTCAGGCTGGACTTGTGAAGCGGTTGGAAAAGACTGAGAACTTAATTCAGGAGgtaaatcatttgccccattaccaccaccactaaagtacttttgttt---tccaagtatcaaagtgtaagtgcctgtttctgcacattcactttctaactgatg

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 7
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAA---GGAAAGCATGCAGAGgtagctaatgtgtcctaactgcaacc-ctaccccctcccctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa
    |||||||||||||| || ||||| |||||||| ||||| || ||||||||||||||||| ||||| |||   ||||| |||   ||||| |    ||||||| ||| | | | |  | |  |    ||            |  |   ||  ||    | | |  |       ||| |     ||    | |  ||| || 
---TTTTTCTGCTGCTGGTCTTCCTCATAATGAAATAGCTGCACAAATCTGTCGTCAGGCTGGTCTTGTAAAGCGGTTGGAAAAATCTGGAAATCTCCTAGAGgta-ctagtttttgcatattttactttctggaattcattgcatttggcaatgtaaaagtaataagatgtctctttggaattgaattgttattgataagaag

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 7
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAA---GGAAAGCATGCAGAGgta-gctaatgtgtcctaactgcaaccctaccccctcc----cctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa
    |||||||||||||| || ||||| |||||||| ||||||||||| ||||| |||||||| ||||| ||||  ||||||||    ||||  |     |||||| | ||   |  |   || | ||     |              |  | |||| | || ||    |||| ||  | | |  || | | |     | |||     
---TTTTTCTGCTGCTGGTCTTCCTCATAATGAAATAGCTGCTCAGATATGTCGGCAGGCTGGTCTTGTAAAGAGGTTGGAGAAGTCTGGAAGTCTCCTTGAGgtatggtagactcgctgcacagaaatttggcatttaataaaattgaattgcaaa-agatgttgattagtagaataactagggcaaagaaccattgttttat----

upper sequence: GRMZM2G181151_T02 (Zea mays), 5'ss of exon 7
lower sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 7
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGC---AGAGgtagctaatgtgtcctaactgcaaccc-taccccctcccctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa--
    |||||||||||||| || || ||||| || |||||||| ||||| ||||| || ||||| |||||  |    |||||||||| |||| ||      |||||    |   | | |  | || ||    || |   |   || |      |    ||| |  |  | ||| ||  ||     |    |    | ||| ||    
---GTTTTCTGCTGCTGGTCTTCCCCACAACGAGATTGCTGCGCAGATTTGTCGACAAGCTGGTCTTGTCCAACGGTTGGAGAAAGAAAAGAATCTCTTGGAGgtgaggaccttatgcatattgaaatatgtatcagattgacttctacttcatgcttttgtttgtctgcaagcacatg---ctagggttatcatattagaacgtt

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|211464055|gb|FL062026.1|FL062026
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAA-GCATGCAAAG                         GGTNGTGAAGATGACNAACTTGGCTATTGTGTTGGCTGCTATGGGAGTGAA
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGAC-AACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAA
EST: gi|211464049|gb|FL062020.1|FL062020
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAG-AAAGCATGCAGAG                         GGTGGTGAAGATGANCA-CTTTGCTATTGTNGTT-GCTGCTATGGGAGTGA
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGA-CAACTTTGCTATTGT-GTTTGCTGCTATGGGAGTGA
EST: gi|211045587|gb|FL062119.1|FL062119
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGGAAGCATGCAGAG                         GGTGGTGGAAGATGACAACTTTGCTATTGGGTTTGC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTG-AAGATGACAACTTTGCTATTGTGTTTGC
EST: gi|32908718|gb|CF013531.1|CF013531
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|60352515|gb|DN219488.1|DN219488
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|32945519|gb|CF050338.1|CF050338
EST:     GTCGTCAGGCCGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|211469118|gb|FL062056.1|FL062056
EST:     TCGTCAGGCTGGCCTTGTGAAAGACAT-GGAGAAAG-AANGCATGCAGAG                         GGGGGTGAAGATGACAACTTTGCTA
genomic: TCGTCAGGCTGGCCTTGTGAA-GACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTA
EST: gi|31360502|gb|CD444859.1|CD444859
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|32933270|gb|CF038082.1|CF038082
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|60394888|gb|DN227757.1|DN227757
EST:     GCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|67028686|gb|CO457435.1|CO457435
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|26557381|gb|CA829616.1|CA829616
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|32944897|gb|CF049716.1|CF049716
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|211471640|gb|FL062065.1|FL062065
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|211461534|gb|FL062016.1|FL062016
EST:     GTCGTCAGGCTGGCTTTGTGAAGACATTGGAGAAAGGAAA-CATGCAGAG                         GGTGGTGAAAAATGACA-CTTTTGCAATTGTGTT
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGA-TGACAACTTT-GCTATTGTGTT
EST: gi|32846162|gb|CD985843.1|CD985843
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|211045584|gb|FL062116.1|FL062116
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAA-GCATGCAGAG                         GGTGGTGAAGATGA
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGA
EST: gi|32933397|gb|CF038209.1|CF038209
EST:     GTCGTCAGGCTGGCCTTGTGAGGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|211464053|gb|FL062024.1|FL062024
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAA-GCATGCAGAG                         GGGTG-TGGAGATGACA-CTTT
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGG-TGGTGAAGATGACAACTTT
EST: gi|32942779|gb|CF047598.1|CF047598
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
EST: gi|211332674|gb|FL416300.1|FL416300
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAA-GCATGCAGAG                         GGTGGTGA-GATGACA
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACA
EST: gi|32931129|gb|CF035941.1|CF035941
EST:     GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAG                         GGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC
genomic: GTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAAC

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: 600

CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAACGGTTCCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 976

CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAACGGTTCCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 586

CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAACGGTTCCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 885

CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatg ... ttacctgcagGGTGGTGAAGATGACAACTTTGCTATTGTGTTTGCTGCTATGGGAGTGAACATGGAAACAGCTCAATTCTTCAAACGTGATTTTGAAGAGAACGGTTCCA


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTATTTTCTGCTGCTGGACTCCCTCACAATGAAATTGCTGCTCAGATCTGTCGTCAGGCTGGCCTTGTGAAGACATTGGAGAAAGGAAAGCATGCAGAGgtagctaatgtgtcctaactgcaaccctaccccctcccctacctacaaacatatttttcagagtacaaacagttgaacacacatctgcactcttaaaaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accctacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctccc