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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgttagaataattttgtttgtgttgacactgaatattttcacattttgttattttttcagtactttaactttttctgaccatctaatgtataaa...

Basic information

species Zea mays
transcript GRMZM2G105772_T01
intron # 3
splice site 5'
intron type U2

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:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211414766|gb|FL112972.1|FL112972
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|148969759|gb|EE020640.2|EE020640
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|149051783|gb|EE155908.2|EE155908
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|60396086|gb|DN228955.1|DN228955
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|148943103|gb|EC888159.2|EC888159
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211414777|gb|FL112983.1|FL112983
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGAACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAA
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGA-CAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAA
EST: gi|9732269|gb|BE511021.1|BE511021
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|78118533|gb|DV536917.1|DV536917
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|148991633|gb|EE033168.2|EE033168
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|91054260|gb|EB164678.1|EB164678
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211412225|gb|FL112969.1|FL112969
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCAC-TCCTACTCAGACAGTGC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGC
EST: gi|211417314|gb|FL112986.1|FL112986
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACGTCAAACGTCAGCAG
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAG
EST: gi|211414769|gb|FL112975.1|FL112975
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAG
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAG
EST: gi|211414779|gb|FL112985.1|FL112985
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211412224|gb|FL112968.1|FL112968
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211414768|gb|FL112974.1|FL112974
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTC
EST: gi|211414765|gb|FL112971.1|FL112971
EST:     AACAAGGGATCATTCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCAT-CAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|21843204|gb|BQ703785.1|BQ703785
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211417315|gb|FL112987.1|FL112987
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAAACGTCAGCAGC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAA-CGTCAGCAGC
EST: gi|91876143|gb|EB406100.1|EB406100
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211414778|gb|FL112984.1|FL112984
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211414775|gb|FL112981.1|FL112981
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCAC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCAC
EST: gi|211414770|gb|FL112976.1|FL112976
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|32910960|gb|CF015772.1|CF015772
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|74240960|gb|DT648874.1|DT648874
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211414774|gb|FL112980.1|FL112980
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|32861117|gb|CF000799.1|CF000799
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211414767|gb|FL112973.1|FL112973
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGGTGCCTGTTGTTCCACCTCAAACGTCAGCAGC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAG-TGCCTGTTGTTCCACCTCAAACGTCAGCAGC
EST: gi|76011555|gb|DT938725.1|DT938725
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|148956696|gb|EC902566.2|EC902566
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211414773|gb|FL112979.1|FL112979
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTT
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTT
EST: gi|211412220|gb|FL112964.1|FL112964
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|149001065|gb|EE038319.2|EE038319
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|91057192|gb|EB167610.1|EB167610
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTGAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|91878897|gb|EB408854.1|EB408854
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|149096952|gb|EE182751.2|EE182751
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
EST: gi|211412226|gb|FL112970.1|FL112970
EST:     AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAG                         GCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC
genomic: AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCC

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), 47 (downstream exon)
Score: 131

AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCCCCAGCTGCACCAGCACCTAT


Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 107

AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCCCCAGCTGCACCAGCACCTAT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 94

AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCCCCAGCTGCACCAGCACCTAT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 78

AACAAGGGATCATCAAGTGCAGCACCGGCTAAGACAACTGCGAATCAGgtgagacgtt ... acttttgcagGCACCTCCTACTCAGACAGTGCCTGTTGTTCCACCTCAAACGTCAGCAGCCCCAGCTGCACCAGCACCTAT