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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTCGACGCAGGCGGCGACGGCGGCGCGCCGAGATGAAGGTCTCCGTGAAGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcggttgcgctcccgatctgtcgctatgtttctagttgctgatgtattggcggggctgcttcgctagatttggctgctttttaggtttgtttg...

Basic information

species Zea mays
transcript GRMZM2G105772_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G105772_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os09g24200.1 (Oryza sativa), 5'ss of exon 1
--AGTTCGACGCAGGCGGCGACGGCGGCGCGCCGAGATGAAGGTCTCCGTGAAGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcggt---tgcgctcccgatctgtcg-ctatgtttctagttgctgatgtattggcggggctgcttcgctagatttggctgctttttaggtttgtttg
  || ||||||  |||||| ||   |||  |  | ||||||| | ||||||||||| ||||||||||| | |||||||||||| |||||  || |  | ||||||  |   |||    |||||| ||||||||||     |      | |   | | | ||       ||  |||  | |    ||  | | |    | | ||   
AGAGCTCGACGGCGGCGGCAACAAGGGCTGG--GGGATGAAGATATCCGTGAAGACACTCAAGGGATCCACCTTCCAGATCGAGGTGGACTCCGCGCAGAAGgtatgctctggtctccgcgctctcgatctgtcggtcgcgagcgccgatttcgtt-tctttctttttctttttcttttgtggggggcgatctaggaggtggt---

upper sequence: GRMZM2G105772_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S58_148V6.4 (Physcomitrella patens), 5'ss of exon 1
AGTTCGACGCAGGCGGCGACGGC--GGCGCGCCGAGATGAAGGTCTCCGTGAAGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcggttgcgctcccgatctgtcgctatgtttctagttgctgatgtattggcggggctgcttcgctagatttggctgctttttaggtttgtttg--
   ||   |   ||||| |   |  |   |  ||  |||||| ||||||||||||||||||||||       ||| |  | |||||    ||| | || | ||||       |    |     ||  ||  | |  | ||    | |  |  |  || |      ||    |  |   ||||   |    |     | | ||  
GCCTCAGAGT--GCGGCAATTACCTGCTCCTTCGTCATGAAGATCTCCGTGAAGACGCTCAAGGGGAACCATTTCGATCTGGAAGTTAGTCCCGCGGATACGgtaaatcgttgccctgtcttggagttggtgtt--gcttgcgttcgtggtagggtttggtaatttgaacgggcatcattggtatccgcgtgaacgtttctgta
















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|109179157|gb|EC379841.1|EC379841
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414766|gb|FL112972.1|FL112972
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|148969759|gb|EE020640.2|EE020640
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|149051783|gb|EE155908.2|EE155908
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|60396086|gb|DN228955.1|DN228955
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|148943103|gb|EC888159.2|EC888159
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414777|gb|FL112983.1|FL112983
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414771|gb|FL112977.1|FL112977
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|9732269|gb|BE511021.1|BE511021
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|78118533|gb|DV536917.1|DV536917
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|148991633|gb|EE033168.2|EE033168
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|91054260|gb|EB164678.1|EB164678
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211412225|gb|FL112969.1|FL112969
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATMGAAGTSGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAMTATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211417314|gb|FL112986.1|FL112986
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414769|gb|FL112975.1|FL112975
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414779|gb|FL112985.1|FL112985
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAATAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211412224|gb|FL112968.1|FL112968
EST:     AGACCCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414768|gb|FL112974.1|FL112974
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414765|gb|FL112971.1|FL112971
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGA-A-TATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|21843204|gb|BQ703785.1|BQ703785
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|78081266|gb|DV509678.1|DV509678
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211417315|gb|FL112987.1|FL112987
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGTWTGCAGGCTTCCT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAG--AGCAGGCTTCCT
EST: gi|91876143|gb|EB406100.1|EB406100
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414778|gb|FL112984.1|FL112984
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414775|gb|FL112981.1|FL112981
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414770|gb|FL112976.1|FL112976
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGCAGCAGGCTTCCTA
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAG-AGCAGGCTTCCTA
EST: gi|32910960|gb|CF015772.1|CF015772
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCATCGACAAG                         GTTGCCGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211412222|gb|FL112966.1|FL112966
EST:     SACGCTCAAGGGATCTAGCTTCCRGATCGAAGTGGAGCCCAGCCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTA
genomic: GACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCA-CCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTA
EST: gi|74240960|gb|DT648874.1|DT648874
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414774|gb|FL112980.1|FL112980
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|32861117|gb|CF000799.1|CF000799
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCATCGACAAG                         GTTGCCGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414767|gb|FL112973.1|FL112973
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|76011555|gb|DT938725.1|DT938725
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|148956696|gb|EC902566.2|EC902566
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211414773|gb|FL112979.1|FL112979
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211412220|gb|FL112964.1|FL112964
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAKTAKCAGGCTTCCTA
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAA-GAGCAGGCTTCCTA
EST: gi|149001065|gb|EE038319.2|EE038319
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|91057192|gb|EB167610.1|EB167610
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|91878897|gb|EB408854.1|EB408854
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|149096952|gb|EE182751.2|EE182751
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT
EST: gi|211412226|gb|FL112970.1|FL112970
EST:     AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAG                         GTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGACCAGGCTTCCTAT
genomic: AGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTAT

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: 48 (upstream exon), 49 (downstream exon)
Score: 354

AGTTCGACGCAGGCGGCGACGGCGGCGCGCCGAGATGAAGGTCTCCGTGAAGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTATCCAGCTGACCAACAAGTCCTTATACATCAAGGAAAGGTGCTCAGCGATG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 124

AGTTCGACGCAGGCGGCGACGGCGGCGCGCCGAGATGAAGGTCTCCGTGAAGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTATCCAGCTGACCAACAAGTCCTTATACATCAAGGAAAGGTGCTCAGCGATG


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 96

AGTTCGACGCAGGCGGCGACGGCGGCGCGCCGAGATGAAGGTCTCCGTGAAGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTATCCAGCTGACCAACAAGTCCTTATACATCAAGGAAAGGTGCTCAGCGATG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 177

AGTTCGACGCAGGCGGCGACGGCGGCGCGCCGAGATGAAGGTCTCCGTGAAGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcg ... cttgaaacagGTTGCTGCTGTGAAAAAGGTCATAGAGAATATGCAAGAGCAGGCTTCCTATCCAGCTGACCAACAAGTCCTTATACATCAAGGAAAGGTGCTCAGCGATG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTTCGACGCAGGCGGCGACGGCGGCGCGCCGAGATGAAGGTCTCCGTGAAGACGCTCAAGGGATCTAGCTTCCAGATCGAAGTGGAGCCCACCGACAAGgtactcatcggttgcgctcccgatctgtcgctatgtttctagttgctgatgtattggcggggctgcttcgctagatttggctgctttttaggtttgtttg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG