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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactttacctctctggcatttttttgtttcccaattcagtgctgatattaactttaggttctctttgttgttgaatcttgtttcttctagtttcagcattgcttaagtgttgtttgcattcaatctaatttgatatctctagGTGTGGAGACTTCAAGCAGCACTTGGTGAACAAACAGAAATCACAAAATTCAGCCAGCAGGAATATGAAAGACTGCAAAAT

Basic information

species Arabidopsis thaliana
transcript AT1G18470.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G18470.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA05G07960.1 (Glycine max), 3'ss of exon 11
gtaactttacctctctggcatttttttgt-ttcccaattcagtgctgatattaactttaggttctc--tttgttgttgaatcttgtttcttctagtttcagcattgcttaagtgttgtttgcattcaatctaatttgatatctctagGTGTGGAGACTTCAAGCAGCACTTGGTGAACAAACAGAAATCACAAAATTCAGCCAGCAGGAATATGAAAGACTGCAAAAT
                   ||||  || | |||    |||| |  |   |  ||    | ||||||  |  |    | | |||   ||| | |    |  || | ||||||           |||| |         || ||   |||| |||||||| || ||||| |||||||||||||||||||| |||||||||||||| ||||| ||||||||||| ||||||
-------------------atttccttatgttctttgttcaatattaggaacaa----aagttctcagtaagccaataattctgacttcctttg---ttggcgt-gcttaaa--------atattcga---------atgtc---agGTTTGGAGACTCCAGGCAGCTCTTGGTGAACAAACAGAAATTACAAAATTCAGCCAACAGGAGTATGAAAGACTTCAAAAT

upper sequence: AT1G18470.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA17G13040.1 (Glycine max), 3'ss of exon 11
gtaactttacctctctggcatttttttgt-ttcccaattcagtgctgatattaactttaggttctctttgttgttgaatcttgtttcttctagtttcagcattgcttaagtgttgtttgcattcaatctaatttgatatctctagGTGTGGAGACTTCAAGCAGCACTTGGTGAACAAACAGAAATCACAAAATTCAGCCAGCAGGAATATGAAAGACTGCAAAAT
                   ||||  || | |||    |||| |  |   |  ||    |  |||||   |  |   |    | | | |||     | ||||| ||||||               ||| |  |   || ||   |||| |||||||| || ||||| ||||| |||||||| ||||| ||||| |||||||| ||||| ||||||||||| ||||||
-------------------atttccttatgttctttgttcaatattaggaacaa----aaattctcag-gaagccaataactttgttttccttcattagcat-gcttaa---------------aattt--tcgaatgtc---agGTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAAT

upper sequence: AT1G18470.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv17s0000g04160.t01 (Vitis vinifera), 3'ss of exon 11
gtaactttacctctc-tggcatttttttgtttcccaattcagtgctgatattaactttaggttctctttgttgttgaatcttgtttcttctagtttcagcattgcttaagtgttgtttgcattcaatctaatttgatatctctagGTGTGGAGACTTCAAGCAGCACTTGGTGAACAAACAGAAATCACAAAATTCAGCCAGCAGGAATATGAAAGACTGCAAAAT
|| |   ||  |||| | |||||  |||||     |  | |      || | || || | ||| ||  | |   | | |  |   | || | | |  | ||| | |    | |  |||| |||     |  |||  |    | ||||||||||||||||||| ||||||||||| ||| ||||||||||||| | |||  ||||||| ||||||||||| ||||||
gtgatcatagttctcatagcattcctttgtacattaccttaa----aatctgaagttaaagttttcaatttacattatttctaaatttttttgct--atcatagttctgatttcatttgtatta---ttggtttttttctcccagGTGTGGAGACTTCAAGCTGCACTTGGTGAGCAATCAGAAATCACAAAGTACAGTAAGCAGGAGTATGAAAGACTTCAAAAT

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|86079365|gb|DR375122.1|DR375122
EST:     ATCCGCCTGAGATAGTCAAGAAAATGCCAAAGGAAGATCTTGCAGAAGAG                         GTGTGGAGACTTCAAGCAGCACTTGGTGAACAAACAGAAATCACAAAATTC
genomic: ATCCGCCTGAGATAGTCAAGAAAATGCCAAAGGAAGATCTTGCAGAAGAGgtaactttac ... atatctctagGTGTGGAGACTTCAAGCAGCACTTGGTGAACAAACAGAAATCACAAAATTC
EST: gi|124970944|gb|EL044745.1|EL044745
EST:     AGGAAGATCTTGCAGAAGAG                         GTGTGGAGACTTCAAGCAGCACTTGGTGAACAAACAGAAATCACAAAATTC
genomic: AGGAAGATCTTGCAGAAGAGgtaactttac ... atatctctagGTGTGGAGACTTCAAGCAGCACTTGGTGAACAAACAGAAATCACAAAATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtttcagcattgcttaagtgttgtttgcattcaatctaatttgatatctctagGTGTGGAGACTTCAAGCAGCACTTGGTGAACAAACAGAAATCACAAAATTCAGCCAGCAGGAATATGAAAGACTGCAAAAT
                                              tatctct  CT-rich tract
                                  aatctaatttgatat  TA-rich tract