Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTGGAAGCGCAAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatacaaggagagttgctaaagccataactgtgaataagcatgttgataatatactgtttgtttttcttttccttgcag

Basic information

species Zea mays
transcript GRMZM2G047219_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047219_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os05g01970.1 (Oryza sativa), 5'ss of exon 5
GTGTGGAAGCGCAAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatacaaggagagttgctaaagccataactgtgaataagcatgttgataatatactgt--ttgtttttcttttccttgcag---------------
|| |||||| | ||||| || ||||||||||||||||| ||||| ||||||||||||||||||||||||  |||| | |  |  | ||   |||  ||||| |    |  |  |   | |  ||   |     |  |||| || |||                
GTTTGGAAGAGGAAGGCGGAGCAGTACCTAGCAGACTCAGGTCTACCATATACAATTATAAGgttgtaaagcaag-acatctcttgaaaatatagttgtgatttgtgaaatgcacgttgtcttgcagtctacataattttactagcacattagctttctagaa
















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|211142589|gb|FL359509.1|FL359509
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGGATAAAGATGGTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAG-ATAAAGATGGTGG
EST: gi|211529297|gb|FL356731.1|FL356731
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGGATAAAGATGGTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAG-ATAAAGATGGTGG
EST: gi|17931616|gb|BM268576.1|BM268576
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|149015400|gb|EE045246.2|EE045246
EST:     AGGCAGAACAGTACCCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AGGCAGAACAGTACC-TAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|94473462|gb|EB702420.1|EB702420
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|148966373|gb|EE017367.2|EE017367
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTCCAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|12045929|gb|BF728159.1|BF728159
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|211072521|gb|FL326767.1|FL326767
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|148996959|gb|EE035773.2|EE035773
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|211140552|gb|FL174090.1|FL174090
EST:     AAGGCATAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|16380015|gb|BI993261.1|BI993261
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|76293497|gb|DV033065.1|DV033065
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|148955762|gb|EC901460.2|EC901460
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|211394348|gb|FL351051.1|FL351051
EST:     GGCAGAACAGTACCTAGCAGACTCCGGGTCTTC-ATTATACAATTATAAG                         AGCTGGCGGTTAACAAGATAAAGGATGGTGGCTTGC
genomic: GGCAGAACAGTACCTAGCAGACTCCGG-TCTTCCAT-ATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAG-ATGGTGGCTTGC
EST: gi|32940932|gb|CF045751.1|CF045751
EST:     ACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: ACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|89762676|gb|DY690164.1|DY690164
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|5706289|gb|AI942065.1|AI942065
EST:     GTACCTAGCAGACTCCGGTCTTCCATATNCAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: GTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|74243387|gb|DT651301.1|DT651301
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|16919596|gb|BM074268.1|BM074268
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|6742502|gb|AW313317.1|AW313317
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|71774203|gb|DR972081.1|DR972081
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
EST: gi|91055640|gb|EB166058.1|EB166058
EST:     AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAG                         AGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG
genomic: AAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGG

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: 37 (upstream exon), 49 (downstream exon)
Score: 129

GTGTGGAAGCGCAAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGGGAAGGATGATGAGATCCTGAAAACAGAAACAAGAACTATAGCCAGGGCC


Block sizes: 37 (upstream exon), 49 (downstream exon)
Score: 752

GTGTGGAAGCGCAAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGGGAAGGATGATGAGATCCTGAAAACAGAAACAAGAACTATAGCCAGGGCC


Block sizes: 36 (upstream exon), 41 (downstream exon)
Score: 32

GTGTGGAAGCGCAAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGGGAAGGATGATGAGATCCTGAAAACAGAAACAAGAACTATAGCCAGGGCC


Block sizes: 37 (upstream exon), 49 (downstream exon)
Score: 573

GTGTGGAAGCGCAAGGCAGAACAGTACCTAGCAGACTCCGGTCTTCCATATACAATTATAAGgttgtaatac ... ttccttgcagAGCTGGCGGTTTACAAGATAAAGATGGTGGCTTGCGAGAGTTGATTGTTGGGAAGGATGATGAGATCCTGAAAACAGAAACAAGAACTATAGCCAGGGCC