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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgccccccacacctcaggctgtctggtttacaggtataggacactaagctgctgcttgcctaaattcaagtgttttggtatctgtctatctgatgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGTGACCCATGAACACCGTACCATTTGGATCTCCTACTGGTCCCAG

Basic information

species Zea mays
transcript GRMZM2G088212_T01
intron # 6
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|31355364|gb|CD439721.1|CD439721
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|51592848|gb|CV071994.1|CV071994
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|12968295|gb|BG265241.1|BG265241
EST:     CGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: CGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|6563780|gb|AW231312.1|AW231312
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|44901312|gb|CK827857.1|CK827857
EST:     GAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: GAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|213172790|gb|FM182986.1|FM182986
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGATCCTTTGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGANNCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|83278461|gb|DV942469.1|DV942469
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|211375390|gb|FK987875.1|FK987875
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|18176932|gb|BM378142.1|BM378142
EST:     TCGTTCCTTCGACCCTGC-AG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: TCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|4681224|gb|AI629894.1|AI629894
EST:     TCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: TCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|51592345|gb|CV071491.1|CV071491
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCNAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|5901194|gb|AW042294.1|AW042294
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|18176922|gb|BM378132.1|BM378132
EST:     CGACCCTGC-AG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: CGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|45567401|gb|CK985553.1|CK985553
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|6227062|gb|AW155766.1|AW155766
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|24768568|gb|CA403697.1|CA403697
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|60351292|gb|DN218265.1|DN218265
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|60348828|gb|DN215801.1|DN215801
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|37361365|gb|CF602654.1|CF602654
EST:     -ATAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|211021120|gb|FK987892.1|FK987892
EST:     GTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: GTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|60357381|gb|DN224354.1|DN224354
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|18176902|gb|BM378112.1|BM378112
EST:     GAGAGATATCGTTCCTTCGACCCTGC-AG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: GAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|5124253|gb|AI745989.1|AI745989
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|12973094|gb|BG268309.1|BG268309
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|6827986|gb|AW331629.1|AW331629
EST:     ANCAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGGCCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|24769943|gb|CA405072.1|CA405072
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|8930216|gb|BE224980.1|BE224980
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGATCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|31350569|gb|CD434926.1|CD434926
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|8366919|gb|BE049927.1|BE049927
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|211023555|gb|FK987912.1|FK987912
EST:     GTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: GTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|13237225|gb|BG355239.1|BG355239
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|83279341|gb|DV943349.1|DV943349
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|211480992|gb|FL462395.1|FL462395
EST:     TCGTTCCTTGGA-CCTTCAAA                         GCAAGACCCGG-TCATCCAGCGATGGGTTGACGCACTGACAGACCCTTGCG
genomic: TCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGA-CCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCG
EST: gi|16378441|gb|BI992446.1|BI992446
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|60342963|gb|DN209936.1|DN209936
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|38502557|gb|CF972417.1|CF972417
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|6828097|gb|AW331740.1|AW331740
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|6056908|gb|AW091313.1|AW091313
EST:     GTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: GTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|18176897|gb|BM378107.1|BM378107
EST:     GAGATATCGTTCCTTCGACCCTGC-AG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: GAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
EST: gi|38502631|gb|CF972491.1|CF972491
EST:     AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAG                         GCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT
genomic: AACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGT

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: 502

TGCATCATTCAGAAGGAGAACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGTGACCCATGAACACCGTACCATTTGGATCTCCTACTGGTCCCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1060

TGCATCATTCAGAAGGAGAACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGTGACCCATGAACACCGTACCATTTGGATCTCCTACTGGTCCCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1175

TGCATCATTCAGAAGGAGAACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGTGACCCATGAACACCGTACCATTTGGATCTCCTACTGGTCCCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 868

TGCATCATTCAGAAGGAGAACAACTTCAAGCAGGCTGGCGAGAGATATCGTTCCTTCGACCCTGCAAGgtttgccccc ... atgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGTGACCCATGAACACCGTACCATTTGGATCTCCTACTGGTCCCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgctgcttgcctaaattcaagtgttttggtatctgtctatctgatgatgacagGCAAGACCGGTTCATCCAGCGATGGGTTGACGCACTGACAGACCCTCGCGTGACCCATGAACACCGTACCATTTGGATCTCCTACTGGTCCCAG
             taaattcaa  TA-rich tract