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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagcttaattttttttttgcctttatggaacagtttctttcttggattttttaaaatgattttatggttccatacaaggccttatctcatatgata...

Basic information

species Zea mays
transcript GRMZM2G133749_T02
intron # 9
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|71758651|gb|DR956588.1|DR956588
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTATTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|60349571|gb|DN216544.1|DN216544
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|78110506|gb|DV528916.1|DV528916
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|78110507|gb|DV528917.1|DV528917
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|78120249|gb|DV538633.1|DV538633
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|60355334|gb|DN222307.1|DN222307
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|76287081|gb|DV026649.1|DV026649
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|5932732|gb|AW057093.1|AW057093
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|31664125|gb|CD573305.1|CD573305
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
EST: gi|213186763|gb|FM190552.1|FM190552
EST:     CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAA                         GTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA
genomic: CCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGA

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), 48 (downstream exon)
Score: 98

GATCCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGAGCCCTGCGGTAGACATCTAGCCACTGGTGGGCAG


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 46

GATCCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGAGCCCTGCGGTAGACATCTAGCCACTGGTGGGCAG


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 55

GATCCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGAGCCCTGCGGTAGACATCTAGCCACTGGTGGGCAG


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 28

GATCCGTACATATTATGTTGGGATATTCGCAATACTGTGGACATTGTTTACAAgtaagagctt ... ccataataagGTTGTACAGATCAGCTGATACTACTAATCAAAGAATACATTTTGATATTGAGCCCTGCGGTAGACATCTAGCCACTGGTGGGCAG