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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttttcttcctctactttccaactttcgtggaaatcgttttttatttattttatagtttatcaatgtgcattgattgtgattatgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA

Basic information

species Arabidopsis thaliana
transcript AT5G64760.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G014116_T02 (Zea mays), 3'ss of exon 4
gtaagcttttcttcctctact---------------ttccaactttcgtggaaatcgttttttatttattt--tatagtttatcaatgtgcattgattgtgattat---gaatta-------------tagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
||||| ||  |   | |||                 |||||  ||  |||  |||  |||| |  || |||  ||  |||  |||||   || |     ||| |||   | | ||              |||| || ||||||||  |||||||||| || ||||||||||||||||||||||| || 
gtaagtttgccccgcactataattgaggacatgtaattccatattctgtgacaatgtttttgtcattctttagtaccgttcctcaattctcactatccatgactataatggactaacaagctgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG

upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G013750_T04 (Zea mays), 3'ss of exon 4
gtaagcttttcttcctctactttcc--aactttcgtggaaatcgttttttatttattttatagtttatcaatgtgcattgattgtgatta-tgaattat-agGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
 | | |  |   | ||    | | |  || || | | |   |  | ||  |  |     |    | | | |     |  |    | |  |   | |||| |||| || ||||||||  | |||||||| || ||||||||||||||||||||||| || 
-tgaaccctaaatactacggtattcataaattccatagtt-ttatcttgaaactccaaaaatactgagctaccaaaacaggccctaacaagctatttatcagGTCGAAACATTTGGCTCCATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG

upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G39520.1 (Glycine max), 3'ss of exon 4
-------------gtaagcttttctt--cctctactttccaactttcg----tggaaatcgttttttatttatttta-tagtttatcaatgtgcattgattgtgattatgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
              ||| | | |  |    | || | | || |||| |    || |  ||  |  ||| | |  |||   |||| |  |  | ||| |||||   |  | ||    ||||||| || |||||||| ||||| |||||||||||||| || |||||||||||||||
gtcagtgtgaattttaaacgtgtgatggattttattatgcacctttggtttttgtatgtcactagttagtgaaattagctgtttgttgacttacat-gattgatttccttaac---agGTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAA

upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G15340.1 (Glycine max), 3'ss of exon 4
----gtaagcttttcttcctctactttccaactttcgtggaaatcgtttttt--atttattttatagtttatcaatgtgcattgattgtgattatgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
    ||  |  | | |  |     ||     |||  ||  |  | |||||||  || ||  | ||   |  ||| | | | |      ||  ||      | ||||||| ||||| ||||| ||||| || |||||||||||||| |||||||||||||||
gtcagtgtgaatgtgtcacatgttttgttggctt--gtatactttgttttttggatgtaactaattagtattcagtttacttatggaatgggtaatctgaacagGTGGAAACATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA

upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G15330.1 (Glycine max), 3'ss of exon 4
-------------gtaagcttttctt--cctctactttccaactttcgtggaaatcgttttttatttatttta-tagtttatcaatgtgcattgattgtgattatgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
              |||   | |  |    | || | |  | |||| ||     |   | | || | |||  | |    ||||| |   | |  ||  |   | |   | | ||||||| || ||||| || ||||| |||||||||||||| || |||||||||||||||
gtccgtgtgaattttaaatgtgtgatggattttattatgtacctttggtttttgtatgtctctagtaattgaaattagctatcagttgacttacatgattggtttccttaacagGTGGAAACTTTTGGCGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAA

upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G32030.2 (Glycine max), 3'ss of exon 4
------gtaagcttttcttcctctactttccaactttcgtggaaatcgttttttatttattttatagtttatcaatgtgcattgattgtgattatgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
      || | | | |||     |  ||     |||   |        ||||  | |||  | |||  |  ||| | | | |      ||  ||    | | ||||||| || |||||||| ||||| || |||||||||||||| |||||||| ||||||
gtcagtgtgaacgtgtctcatgtt--ttgttggcttctatactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA

upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 3'ss of exon 4
-----------gtaagcttttctt---cctctactttccaactttcgtggaaatcgtttt--ttatttattttatagtttatcaatgtgcattgattgtgatta-tgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
            ||   ||  | |   | | |  |||      || |   | |         || ||| |||| ||  |||     |  | ||| |||   ||| | ||| | ||||||| ||||||||||| |||||||||||||| |||||||| |||||||||||||||
gtcagttaaaaatagagttaccatgggctttttatttttggtattagaaaacactaaccccgttgtttgtttt-tatattacacgagcactttggttgatgttacttaatcacagGTGGAAACATTTGGTGCAATGGCAAAAACTGAAAAAATTGCATTCATTCTTGAACAA

upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S58_256V6.1 (Physcomitrella patens), 3'ss of exon 4
-------------------------------------------------------------------gtaagcttttcttcctctactttccaactttcgtggaaatcgttt--tttattta-ttttatagtttatcaatgtgcattgat-----tgtgattatgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
                                                                      |  |     |    |  | | |       |    | | | ||  | ||   |  ||| || || ||  |  ||   | ||     ||  ||  |  | |  |||||||||| || |||||||||||||| || |||||||||||||||||||| || || 
gtatgatccctaatcttccactttttttgaaacttatatttaggagcaagaaatttcgtttttgatctcgaagtcggtgtgaagtggtatgcggtgcctgaaccagtagattggtctacgcagctttctaattgatgcacctgatctaataatgttgcaatactccaatgaagGTGGAGACCTTCGGTGCTATGGCAAAGACAGAGAAAATTGCTTTCATTCTAGAGCAG

upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S257_89V6.2 (Physcomitrella patens), 3'ss of exon 4
--------------------------gtaagcttttcttcctctactttccaactttc-----gtggaaatcgttttttatttatttta----------tagtttatc-aatgt----gcattgattgtgatta-----tgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
                           | |  |   |      ||   |  ||  |||     ||||||  | ||||     || |  |          | || |||  ||| |    ||  |||||   ||       ||   |  ||||||| || |||||||| ||||||||||||||||| |||||||||||||||||||||
gtatgtgatattgcttcgtgctgttgatcaattcaacggttagtaacatgtaatgttcatggtgtggaagacattttggtgctactagagtgcacagggtggtgtattgaatattggagccctgattcgtatcggcgtttggtcttcagGTGGAAACTTTTGGTGCCATGGCAAAAACTGAGAAGATTGCTTTCATTCTTGAACAA

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|86080863|gb|DR376620.1|DR376620
EST:     ATGAACAAGGTTTGATTGCTGAAGCTGCGGATCTCATGCAAGAAGTTGCT                         GTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTT
genomic: AAGAACAAGGTTTGATTGCTGAAGCTGCGGATCTCATGCAAGAAGTTGCTgtaagctttt ... tgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttatttattttatagtttatcaatgtgcattgattgtgattatgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA
                              cattgat  putative branch site (score: 4)
     atttattttatagttt  TA-rich tract