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'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacaagactgttccaattaacttgcatttttttgtgaaattgtccccctttcttatttctgctagattactggtggtctagagcattaggtcttttgatcagcttaacagcttctttgttaattttcacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAACGTCCTGATGCCTTTAG

Basic information

species Zea mays
transcript GRMZM2G017835_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017835_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 7
gtaaacaagactgttccaattaacttgcatttttttgtgaaattgtccccctttcttatttctgctagattactggtggtctagagcattaggtcttttgatcagcttaacagcttctt-tgttaattttcacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAACGTCCTGATGCCTTTAG-
                                                       ||| |  |   |  | |  | || |  |   ||||     |     ||   ||      ||||  | | |   |    ||  ||||||||||||||||||| ||  | | |||||||||||||   ||||||||||| ||||||   ||||| 
-------------------------------------------------------ttagtagtttcaattcaaggatgatgcatttcattcatattcacactcctttttgacctttctcatataagcatgtgtttttcagcAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGG

upper sequence: GRMZM2G017835_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA08G47680.2 (Glycine max), 3'ss of exon 7
gtaaacaagactgttccaattaacttgcatttttttgtgaaattgtccccctttcttatttctgctagattactggtggtctagagcattaggtcttttgatcagcttaacagcttcttt---gttaattttcacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAACGTCCTGATGCCTTTAG
                                                       ||| |  |   |  | |  | || |  |   |||| |   ||    ||  |||     | | | |    | |      | ||  ||||||||||||||||||| ||  | | |||||||||||||   ||||||||||||||||||   |||||
------------------------------------------------------gttagtagttgcaattcaaggatgatgcatttcattcgtatttacactctcctttttgacctttctcatataagcacgtattttgcagCAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGTCCTGATATGTTTAG

upper sequence: GRMZM2G017835_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 7
gtaaacaagactgttccaattaacttgcatttttttgtgaaattgtccccctttcttatttctgctagattactggtggtctagagcattaggtcttttgatcagcttaacagcttctttgtta---attttcact-tgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAACGTCCTGATGCCTTTAG
                    ||| ||  ||||||| | |         || ||||   ||| | ||    | |||    |  | |    |   || ||| ||    || | |  ||  || | |   |||   | | |  |||||||||||||||| || | |||||||||||||||||||   |||||||| || ||||||   |||||
-------------------gtaagtta-attttttagag---------ccttttcaagtttatccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG

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|31355100|gb|CD439457.1|CD439457
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|211242969|gb|FL282602.1|FL282602
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|22819487|gb|BU499577.1|BU499577
EST:     CCTTCAACGCCTCATGAAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGCTATGATCAAC
genomic: CCTTCAACGCCTCATGAAAA-GAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|211242967|gb|FL282600.1|FL282600
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|76015692|gb|DT942862.1|DT942862
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|32832258|gb|CD971936.1|CD971936
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|87156608|gb|DY401397.1|DY401397
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|31440950|gb|CD510381.1|CD510381
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|6587599|gb|AW244917.1|AW244917
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGC
EST: gi|32832272|gb|CD971950.1|CD971950
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|211242968|gb|FL282601.1|FL282601
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|26559748|gb|CA831983.1|CA831983
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|32832300|gb|CD971978.1|CD971978
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|148988749|gb|EE031658.2|EE031658
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|60345255|gb|DN212228.1|DN212228
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|32832043|gb|CD971721.1|CD971721
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|32835538|gb|CD975216.1|CD975216
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
EST: gi|32835900|gb|CD975578.1|CD975578
EST:     GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAG                         CAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC
genomic: GCCTTCAACGCCTCATGAAAAGAAACTTTATCTTGTGGATCTTGGATTAGgtaaacaaga ... cacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcattaggtcttttgatcagcttaacagcttctttgttaattttcacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAACGTCCTGATGCCTTTAG
                                   tgttaat  putative branch site (score: 3)
                                         ttttcactt  CT-rich tract
                              ttctttgttaatttt  TA-rich tract