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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcattcatcacttaatccttacagctgcagtagcataactaggaccatgcaacctactcattatattggtctgtcatgcaacctactcattatactgggttgtccagttgtaaacttttctgctctcaatgtgttgataacttttggtcaatcctgttgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCTAATTTATAATTTTCCATGAGCATCTTCAAGAGTTTTTCTAAATTATCAT

Basic information

species Zea mays
transcript GRMZM2G153569_T02
intron # 7
splice site 3'
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|5688507|gb|AI941522.1|AI941522
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|31357004|gb|CD441361.1|CD441361
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|4730768|gb|AI649934.1|AI649934
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|60339257|gb|DN206230.1|DN206230
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|211291797|gb|FL131040.1|FL131040
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGGCTTCA-CAAGATCT                         AAATTTCCTTGTGATGGTGGCA-TGGTGG
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGG
EST: gi|32839749|gb|CD979430.1|CD979430
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCCTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACC
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACC
EST: gi|6056800|gb|AW091205.1|AW091205
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|32840968|gb|CD980649.1|CD980649
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGCTGGTGGCAATGGTGGTTGGTGGGCACTGT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGT
EST: gi|4804538|gb|AI665411.2|AI665411
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|67012865|gb|CO441614.1|CO441614
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGGCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGC
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGC
EST: gi|84969889|gb|DW468295.1|DW468295
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|31405963|gb|CD484695.1|CD484695
EST:     GTGAGCGAATNAAAAA-AGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: GTGAGCGAAT-ACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|4827437|gb|AI668129.1|AI668129
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|33093219|gb|CF053213.1|CF053213
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTA
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTA
EST: gi|6695529|gb|AW288637.1|AW288637
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|89106046|gb|DY576263.1|DY576263
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|32846492|gb|CD986173.1|CD986173
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGT
EST: gi|6021987|gb|AW066915.1|AW066915
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCCCTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|60398710|gb|DN231526.1|DN231526
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|116815743|gb|EC858430.1|EC858430
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|16378152|gb|BI992294.1|BI992294
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|14700928|gb|BI233346.1|BI233346
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCATTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|31406066|gb|CD484798.1|CD484798
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|31440896|gb|CD510327.1|CD510327
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|71315076|gb|DR794166.1|DR794166
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCT
EST: gi|33093139|gb|CF053133.1|CF053133
EST:     AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCT                         AAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGT
genomic: AGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGT

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: 100

GACCTTGTCTCTGTTGACACTCTCATCGAGGACCATCTCTGCGCTGAGCCAGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCTAATTTATAATTTTCCATGAGCATCTTCAAGAGTTTTTCTAAATTATCAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 157

GACCTTGTCTCTGTTGACACTCTCATCGAGGACCATCTCTGCGCTGAGCCAGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCTAATTTATAATTTTCCATGAGCATCTTCAAGAGTTTTTCTAAATTATCAT


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 101

GACCTTGTCTCTGTTGACACTCTCATCGAGGACCATCTCTGCGCTGAGCCAGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCTAATTTATAATTTTCCATGAGCATCTTCAAGAGTTTTTCTAAATTATCAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 167

GACCTTGTCTCTGTTGACACTCTCATCGAGGACCATCTCTGCGCTGAGCCAGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcatt ... tgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCTAATTTATAATTTTCCATGAGCATCTTCAAGAGTTTTTCTAAATTATCAT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttttctgctctcaatgtgttgataacttttggtcaatcctgttgtgttgcagAAATTTCCTTGTGATGGTGGCAATGGTGGTTGGTGGGCACTGTACCAGCCTAATTTATAATTTTCCATGAGCATCTTCAAGAGTTTTTCTAAATTATCAT
                      tgataac  putative branch site (score: 167)
                                       tcctgtt  putative PPT
                        ataactttt  TA-rich tract