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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCAAGGAGGAGTACCCGTACTTCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcagagaacttcagaaatgccgcattcatgtgcacttgaggttgccctggagcccattcgtttcagagtttctgaccatcggcggccgaatgagt...

Basic information

species Zea mays
transcript GRMZM2G155962_T03
intron # 2
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|93284051|gb|EB676315.1|EB676315
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|60397566|gb|DN230382.1|DN230382
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211322966|gb|FL249424.1|FL249424
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|20507977|gb|BQ279847.1|BQ279847
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211322963|gb|FL249421.1|FL249421
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|21987683|gb|BQ779211.1|BQ779211
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211322962|gb|FL249420.1|FL249420
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|101390398|gb|EB817133.1|EB817133
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211322965|gb|FL249423.1|FL249423
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211322967|gb|FL249425.1|FL249425
EST:     TCCCAGGCCAGGAACCCACGCTGCGTG-CGACGC-GACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211322961|gb|FL249419.1|FL249419
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|26456812|gb|CA828395.1|CA828395
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211322964|gb|FL249422.1|FL249422
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|78090807|gb|DV519181.1|DV519181
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|26558292|gb|CA830527.1|CA830527
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         GGGATGGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAA
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTAT-GAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAA
EST: gi|211320799|gb|FL249416.1|FL249416
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTGTTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|76909089|gb|DV163217.1|DV163217
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|60357568|gb|DN224541.1|DN224541
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211320798|gb|FL249415.1|FL249415
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211320801|gb|FL249418.1|FL249418
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
EST: gi|211320800|gb|FL249417.1|FL249417
EST:     TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAG                         TGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT
genomic: TCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAAT

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), 44 (downstream exon)
Score: 80

GCCAAGGAGGAGTACCCGTACTTCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAATCATATGTTTGATCATTCGTTGGTAACTAG


Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 146

GCCAAGGAGGAGTACCCGTACTTCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAATCATATGTTTGATCATTCGTTGGTAACTAG


Block sizes: 42 (upstream exon), 24 (downstream exon)
Score: 2

GCCAAGGAGGAGTACCCGTACTTCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAATCATATGTTTGATCATTCGTTGGTAACTAG


Block sizes: 42 (upstream exon), 44 (downstream exon)
Score: 14

GCCAAGGAGGAGTACCCGTACTTCCCAGGCCAGGAACCCACGCTGCGTGGCGACGCCGACTTCTTACTCGAGgtcagtcaga ... ttcttttcagTGTATGAGTGAAGCTGGAGTGGACGGGGCTGTTATTGTTCAACCTATTAATCATATGTTTGATCATTCGTTGGTAACTAG