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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAATCGGTGATGAAGCTTCTGGAATCTGTGGGAGTCGAATAGCCGCAAAAATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcaccttggtactccttgccttctcattctcttgtctgatcatctggtgcacatttggaagcatgtagtgcgatggtagtagtataggatcctgtc...

Basic information

species Zea mays
transcript GRMZM2G178346_T02
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|71429185|gb|DR810235.1|DR810235
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTTTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|14646245|gb|BI180434.1|BI180434
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|91871988|gb|EB401945.1|EB401945
EST:     AATGGCGTTGGTCGTGGGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|50334100|gb|CO529226.1|CO529226
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|32838385|gb|CD978063.1|CD978063
EST:     A-TGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGT
EST: gi|71329171|gb|DR801295.1|DR801295
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|14585624|gb|BI135376.1|BI135376
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|113701953|gb|EE679457.1|EE679457
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GTGAGCACCTTGGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagG-G------T-G--T--CTCCGGTACGCGGAATTCGTGGGATCCATCGACT
EST: gi|86468088|gb|DY234458.1|DY234458
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|89760835|gb|DY689086.1|DY689086
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|32835984|gb|CD975662.1|CD975662
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTA
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTA
EST: gi|71305902|gb|DR789076.1|DR789076
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTTTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|29945342|gb|CB815591.1|CB815591
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|78123556|gb|DV541940.1|DV541940
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|86467635|gb|DY234005.1|DY234005
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|71773042|gb|DR970960.1|DR970960
EST:     AATGGCGTTGGTCGTGGGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTTTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|213174206|gb|FM183972.1|FM183972
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|31909963|gb|CD651183.1|CD651183
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|71314423|gb|DR793839.1|DR793839
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTTTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|71320827|gb|DR797131.1|DR797131
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|32834864|gb|CD974542.1|CD974542
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGT
EST: gi|78124669|gb|DV543053.1|DV543053
EST:     AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCT
EST: gi|32838411|gb|CD978089.1|CD978089
EST:     A-TGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGA                         GGTGTCTCCGGT
genomic: AATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGT

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: 46 (upstream exon), 48 (downstream exon)
Score: 59

AAAATCGGTGATGAAGCTTCTGGAATCTGTGGGAGTCGAATAGCCGCAAAAATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCTTCACGTGCTCCCCGAATAATGCGACGGTCTCCATCCTCGCCGATCCCGG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 63

AAAATCGGTGATGAAGCTTCTGGAATCTGTGGGAGTCGAATAGCCGCAAAAATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCTTCACGTGCTCCCCGAATAATGCGACGGTCTCCATCCTCGCCGATCCCGG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 61

AAAATCGGTGATGAAGCTTCTGGAATCTGTGGGAGTCGAATAGCCGCAAAAATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCTTCACGTGCTCCCCGAATAATGCGACGGTCTCCATCCTCGCCGATCCCGG


Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 69

AAAATCGGTGATGAAGCTTCTGGAATCTGTGGGAGTCGAATAGCCGCAAAAATGGCGTTGGTCGTGCGAATTTACAGAGCCTCGTTTTGGCGGCGATAGAgtgagcacct ... atgattgcagGGTGTCTCCGGTACGCGGAATTCGTGGGATCCATCGACTGCCGCGACGCCTTCACGTGCTCCCCGAATAATGCGACGGTCTCCATCCTCGCCGATCCCGG