Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacttccttgcctctgttttctgttattaccgttgcttcttgttgagatgttaatcctttcctttccctgtctcaactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTTCATCATTTCTATCTCTCTCGATCAATGATTATTTATGTACTGCTATAAT

Basic information

species Zea mays
transcript GRMZM2G701689_T01
intron # 10
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|211513606|gb|FL043442.1|FL043442
EST:     CCCCTTGAATTTACCATATTTTGTSACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: CCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|50331743|gb|CO526869.1|CO526869
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|78118334|gb|DV536720.1|DV536720
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|33098198|gb|CF058158.1|CF058158
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|18168255|gb|BM338095.1|BM338095
EST:     CCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: CCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|8383332|gb|BE056275.1|BE056275
EST:     ATCCAGAACCCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|40336440|gb|CK370510.1|CK370510
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|211055193|gb|FL434252.1|FL434252
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|32863151|gb|CF002833.1|CF002833
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|71312699|gb|DR792874.1|DR792874
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|33097320|gb|CF057280.1|CF057280
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|31357051|gb|CD441408.1|CD441408
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|44900074|gb|CK826619.1|CK826619
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|18171098|gb|BM340938.1|BM340938
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|211511250|gb|FL043438.1|FL043438
EST:     CCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: CCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|37383690|gb|CF628870.1|CF628870
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|6021890|gb|AW066818.1|AW066818
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|76915165|gb|DV165859.1|DV165859
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|113744887|gb|DW865179.1|DW865179
EST:     CAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: CAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|37393335|gb|CF633930.1|CF633930
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|31356228|gb|CD440585.1|CD440585
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|17930746|gb|BM267706.1|BM267706
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
EST: gi|78024083|gb|DV492470.1|DV492470
EST:     ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTG                         GTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT
genomic: ATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTT

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: 442

AAAGTCCATTCCTTCTTTCCCTTCCCTTGGCGGTGATGTAAACAATGAGGATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTTCATCATTTCTATCTCTCTCGATCAATGATTATTTATGTACTGCTATAAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 197

AAAGTCCATTCCTTCTTTCCCTTCCCTTGGCGGTGATGTAAACAATGAGGATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTTCATCATTTCTATCTCTCTCGATCAATGATTATTTATGTACTGCTATAAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 208

AAAGTCCATTCCTTCTTTCCCTTCCCTTGGCGGTGATGTAAACAATGAGGATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTTCATCATTTCTATCTCTCTCGATCAATGATTATTTATGTACTGCTATAAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 317

AAAGTCCATTCCTTCTTTCCCTTCCCTTGGCGGTGATGTAAACAATGAGGATCCAGAAACCAAGTTGCCAGCCCCTTGAATTTACCATATTTTGTCACTGgtaaacttcc ... aactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTTCATCATTTCTATCTCTCTCGATCAATGATTATTTATGTACTGCTATAAT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgttgcttcttgttgagatgttaatcctttcctttccctgtctcaactcatcagGTTTATTTCTACCATACCATCTGATAGTGGACAGCCAAGCGACTTTCCTTTCATCATTTCTATCTCTCTCGATCAATGATTATTTATGTACTGCTATAAT
                   tgttaat  putative branch site (score: 317)
                         tcctttcctttccctg  CT-rich tract
                  atgttaat  TA-rich tract