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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgcatctgccttttcacgttgaagagcattcttctcttccgttattttcttattggagttacttttgtatccttggttctcagGTTAATCCGATTGCTGTCAATAGCAAGTACTGTAATGTGTTCACTGAGAATAAACGGACCATCGTAATTATATCAACAGCAGAGTTTGGAAAG

Basic information

species Arabidopsis thaliana
transcript AT4G25970.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G25970.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM2G133885_T02 (Zea mays), 3'ss of exon 2
-----------------------------------gtattgcatctgcctttt--cacgttgaagagcattcttctcttccgttattttctta---ttggagttacttttgtatccttggttctcagGTTAATCCGATTGCTGTCAATAGCAAGTACTGTAATGTGTTCACTGAGAATAAACGGACCATCGTAATTATATCAACAGCAGAGTTTGGAAAG
                                    | | | | |||         | |||   |  |     | | |   || ||||         ||  | | ||  | || |     ||  ||||| ||||| || ||||| ||||||||||| || ||||| ||||||||||||||| |     |   ||| ||||||||  ||||||||||||||
gtatataatacttatatcggcacgctttgatgtcactgtggtaactggaaagggatatgtttgtgttctgctctatttcttgtcatttctcagcatctgctgatgctggtctacctgcatttgacagGTGAATCCCATCGCTGTGAATAGCAAGTATTGCAATGTATTCACTGAGAATAAAAGAGTTGTATCAATGATATCAACTTCAGAGTTTGGAAAG

upper sequence: AT4G25970.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA15G05680.1 (Glycine max), 3'ss of exon 18
-----------------gtattgcatctgccttttcacgttgaagagcattcttctcttccgttattttcttattggagttacttttgtatcct----tggttctcagGTTAATCCGATTGCTGTCAATAGCAAGTACTGTAATGTGTTCACTGAGAATAAACGGACCATCGTAATTATATCAACAGCAGAGTTTGGAAAG
                  |   | |  ||   | |||  |  |    |  | || ||||| |||| ||     |||   || |     |||| |    |  | ||||||| ||||| |||||||| ||||| |||||||||||||| ||||| ||||| ||  |    ||   ||  || ||||| | ||| |||||||||
gtatgtgtaataataacttgagggaaatgatatgtcatatatattgtc--tattttcttctgttaattctcagttgtgtttccccccctatcgtgttctactcctcagGTGAATCCCATTGCTGTAAATAGTAAGTACTGTAATGTCTTCACGGAGAACAAGAGAGTTATTTCAAGAATTTCAACTGTAGATTTTGGAAAG

upper sequence: AT4G25970.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA08G19310.2 (Glycine max), 3'ss of exon 16
-------------------------------gtattgcatctgccttttcacgttgaagagcattcttctcttccgttattttcttattggagttacttttgtatcct----tggttctcagGTTAATCCGATTGCTGTCAATAGCAAGTACTGTAATGTGTTCACTGAGAATAAACGGACCATCGTAATTATATCAACAGCAGAGTTTGGAAAG
                                  |   || |   | |  |  |  |   |  |  ||   ||| |||| || || ||| | |||       |||  |    |  | ||||||| ||||| |||||||| |||||||||||||| ||||| ||||| ||||| ||  |     |   |||  | ||||| | ||| |||||||||
gtatgtgtaataataacttgagaaaaatgataagtcatatatatatatatatatatatttgtctattttctttctgttaatt-ctcatttgtgttttccccctattgtgttctactcctcagGTCAATCCCATTGCTGTAAATAGCAAGTACTGCAATGTCTTCACGGAGAACAAGAGAGTTGTTTCAATAGTTTCAACTGTAGATTTTGGAAAG

upper sequence: AT4G25970.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv12s0055g00710.t01 (Vitis vinifera), 3'ss of exon 14
-----------------gtattgcatctgccttttcacgttgaagagcattcttctcttccgttattttcttattggagttacttttgtatccttggttctcagGTTAATCCGATTGCTGTCAATAGCAAGTACTGTAATGTGTTCACTGAGAATAAACGGACCATCGTAATTATATCAACAGCAGAGTTTGGAAAG
                  | ||| |  | | | ||    ||| | |   || || | || | | |     |     ||  |  |  | |||   |   |   |||||||||| |||||||| ||||||||||| || ||||| ||||| ||||| || ||     |     |||| |||||| |||| ||||| |||
gtatgtgcaattattatctgttgaaatt-catgtttgttttgcaaactgtttttttgtttcttcagaacttcccatgatcttttactttatttctttctgctagGTTAATCCCATTGCTGTGAATAGCAAGTATTGCAATGTATTCACAGAGAACAAGCGAGTAGTATCTGTTATTTCAACATCAGATTTTGGGAAG

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|164062530|gb|EL994578.1|EL994578
EST:     TCTCTGGTGTCATTGAAAAGTTTGTCAATGTTTCTGGAAGCTTATATACG                         GTTAATCCGATTGCTGTCAATAG
genomic: TCTCTGGTGTCATTGAAAAGTTTGTCAATGTTTCTGGAAGCTTATATACGgtattgcatc ... tggttctcagGTTAATCCGATTGCTGTCAATAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttctcttccgttattttcttattggagttacttttgtatccttggttctcagGTTAATCCGATTGCTGTCAATAGCAAGTACTGTAATGTGTTCACTGAGAATAAACGGACCATCGTAATTATATCAACAGCAGAGTTTGGAAAG
                                       tatcctt  CT-rich tract
             ttattttcttatt  TA-rich tract