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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttgttcgatatagcatttctgttaataggaaaataaatttaagaatctgattcgaaaaccagatgttgttctgtttttggctcatggtttcagCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTTGAATGTCTCGACTCAGCCATTATGGACACTCATGAATGCCAACCATTGT

Basic information

species Arabidopsis thaliana
transcript AT4G36860.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA16G25750.1 (Glycine max), 3'ss of exon 7
gtcagttgttcgatatagcatttctgttaataggaaaataaatttaagaat--ctgattcgaaaaccagatgttgttc-tgtttttggctcatgg---tttc----------agCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTTGAATGTCTCGACTCAGCCATTATGGACACTCATGAATGCCAACCATTGT
||||||| |   |  |||||   |  || || |     |      || |||  || | ||        | | |||||  | |  ||  |  |||    ||||          || ||   ||||| || |||||  | ||||||||||||||||| |||||||| || ||||| |||||||| || ||||| |||||||||||||||||  | |
gtcagttatatcagctagcaaaacatttcatcgtttgttgttaccaacaatatctcactcctttctttgtttttgtttgtttccttttcatatgaaactttccaatcagtgcagTCAGTGGATACCAAGTATCTGTTGCTTGATGATGGTCGAAAGCTGTGTCTGGAGTGTCTTGACTCAGCTATCATGGATACTCATGAATGCCAACCTCTCT

upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA11G06650.2 (Glycine max), 3'ss of exon 3
----------------gtcagttgttcgatatagcatttctgttaataggaaaataaatttaagaatctgattcgaaaac---cagatgttgttctgttt--ttggctc----atggtttcagCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTTGAATGTCTCGACTCAGCCATTATGGACACTCATGAATGCCAACCATTGT
                  ||  | ||    ||   |||  | | |||  |||  ||| | |  ||  ||   ||     |   ||     ||| | ||||  ||| ||     ||   | |||||||  ||||||||||||||  | ||||||||||||||||| || ||| | || ||||| |||||| | |||||||| |||||||||||||||||  | |
gttagttatattgactcccaaatctttt-catcctattattatcaattagaagctaactgttggatccttcctctcctccccccattccctgtcccgttttcttgccttttcaatcaatgcagCCAAGGGATACAAAATATCTTTTGCTTGATGATGGTCGAAAGCTATGTTTAGAGTGTCTAGACTCATCAATTATGGATACTCATGAATGCCAACCTCTTT

upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA01G38640.1 (Glycine max), 3'ss of exon 6
---------gtcagttgttcgatatagcatttctgttaatag-----gaaaataaatttaagaatctgattcgaaaa-----ccagatgttgttctgtttt--tggctc----atggtttcagCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTTGAATGTCTCGACTCAGCCATTATGGACACTCATGAATGCCAACCATTGT
          | || |     || |     | || ||| ||        ||   || | | | |||   | |          |||     ||| | |||||  || ||     ||   | ||| | |  ||||||||||||||  | ||||||||||||||||| || ||| | || ||||| |||||| | |||||||| |||||||||||||||||  | |
gtcagttatattagctcccaaatcttttcatcctattattaacaattagaagctaactgatggatcccttcccctcctccctccattccctgtcccgttttcttgccttttcaatcagtgcagTCTAGGGATACAAAATATCTTTTGCTTGATGATGGTCGAAAGCTATGTTTAGAGTGTCTAGACTCATCAATTATGGATACTCATGAATGCCAACCTCTTT

upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G06720.2 (Glycine max), 3'ss of exon 7
------------------gtcagttgttcgatatagcatttctgttaataggaaaata--aatttaa---gaatctgattcgaaaaccagatgttgttctgttttt----------ggctc----atggtttcagCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTTGAATGTCTCGACTCAGCCATTATGGACACTCATGAATGCCAACCATTGT
                     | || ||   ||     ||  |   || | | | |||   || ||       ||| | ||        | | ||||  | ||  |            ||     ||   ||||| ||   ||||| ||||||||  | ||||| ||||||||||| ||||| || || ||||| |||||||| || ||||| |||||||||||||||||  | |
gtcagctatatcagatcacaaaattttttcgtaattttttgttaccaacaagcagatactgatgtatcccatctctcactcctttctttgtttttgtctttttcctttccgtatgaaactttccgatcagttcagTCAGTGGATACCAAATATCTGTTGCTTGACGATGGTCGAAAGCTGTGCCTGGAGTGTCTTGACTCAGCTATCATGGATACTCATGAATGCCAACCTCTCT

upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA12G19010.1 (Glycine max), 3'ss of exon 6
--------------gtcagttgttcgatatagcatttctgttaataggaaa-ataaatttaagaatctgat-tcgaaaaccagatgttgttct-gtttttggctc-------------------atggtttcagCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTTGAATGTCTCGACTCAGCCATTATGGACACTCATGAATGCCAACCATTGT
               |||    ||   |  |  | || |||||  |  ||  | | | | | | |||  || ||  |  ||     ||||| | || |||  |                     ||  |||||| ||   ||||| ||||||||  | ||||| ||||||||||| ||||| || || ||||| |||| ||| || ||||| |||||||||||||||||  | |
gtcagttatatcagatcacaaatttttttcataaattttgttaccaacaagcagatactgatgtatcccatctctcactcctttctttgtttttgtctttttcctttccgtatgaaactttccgatcatttcagTCAGTGGATACCAAATATCTGTTGCTTGACGATGGTCGAAAGCTGTGCCTGGAGTGTCTTGACTTAGCTATCATGGATACTCATGAATGCCAACCTCTCT

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|164064005|gb|ES117914.1|ES117914
EST:     AACTCCTCGGTGTTGCAGTTGTGAGCGAATGGAG                         CCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTT
genomic: AACTCCTCGGTGTTGCAGTTGTGAGCGAATGGAGgtcagttgtt ... atggtttcagCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTT
EST: gi|86086879|gb|DR382638.1|DR382638
EST:     CACATGAGCGTGATGGAACTCCTCGGTGTTGCAGTTGTGAGCGAATGGAG                         CCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTT
genomic: CACATGAGCGTGATGGAACTCCTCGGTGTTGCAGTTGTGAGCGAATGGAGgtcagttgtt ... atggtttcagCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaagaatctgattcgaaaaccagatgttgttctgtttttggctcatggtttcagCCAAAAGATACAAAATATCTCATTCTTGATGATGGTCGAAAACTGTGTCTTGAATGTCTCGACTCAGCCATTATGGACACTCATGAATGCCAACCATTGT
      atctgat  putative branch site (score: 4)
                                 tgttttt  TA-rich tract