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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT

Basic information

species Arabidopsis thaliana
transcript AT1G32770.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os06g04090.1 (Oryza sativa), 3'ss of exon 1
gttaaaccctaaatatgaaaaaaaac-tctttcatttctacgaactctctat-ttctttgttctttatt-tttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
       | ||| || | | | | || ||  ||| ||| |   | | |  |  |  |||| ||  | |    ||      |     || || ||||||||   || || || || |||  ||| ||||||||||||||||||||||||||||||||||||||||| || || ||||| ||||||||||||||||| | 
----gtacgtaattaagcacacacacatcgatcaattcgatcgatttttgacatgttttgatcaatgtggcatgtgtgtatcatacatacatatgcagAGAGGTGCAGGATTGGGTCAGGGCCGCAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGAGGACGAACCGGGCAACGGC

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os08g02300.1 (Oryza sativa), 3'ss of exon 1
------------------------------------------------gttaaaccctaaatatgaaa-----aaaaactctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtat-gcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                                                 | ||   |||  ||  |||      |    | | ||| |    ||| ||      |   |   |  |  | | ||  | |  |   ||| |    |||||||   ||||  || || |||  ||| || |||||||||||||||||||||||||||||||||||||| || || ||||| ||||||||| |||| || | 
gtagctaagctagtattcctcatcatataacctttctcctctccaattctcaatttctagctaccaaatcgatgatggatttatcaatcaatcgagctaa--gctagctaagtaatggtgtgtgtgcaaaatatatattgtggttgcagAGAGGTGTAAGATTGGGTCAGGGCCGCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGAGGACGAACAGGGCGACGGC

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G069047_T01 (Zea mays), 3'ss of exon 1
---------------------------------------------------------------------------------------------gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                                                                                             | |   |     | | ||  |  |||     |   ||  || ||  || ||  |  || || |     ||         |  |  |   ||||||||  ||| |  ||||| ||    || || |||||||||||||||||||||||||||||||||||||| || || |||||  | || ||||| || || | 
gtacggtatacttaccaccatataccttccatctccgaggtccgagcaaagcatcagctcgtgatcataggatcggatcggagctggtgacctgatggtcatgtcacacgagcatgaacgtgagctgatcatcgtacg-tccatggcgctgatcatcggggttagttatcgattctgcgtgcatgcagAGAGATGCAAGATCGGGTCGGGTCCCCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGCGCACCAACCGCGCTACGGC

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G171395_T01 (Zea mays), 3'ss of exon 1
-----------------------------------------------gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctctatttctttgttctttatttttga--accattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                                               ||  |  |    ||   | | |   ||||  | |   |  |  ||| |   | | |   |      |  |||    |     |||   |  |||||||| | ||  | ||||||||    || || |||||||||||||||||||||||||||||||||||||| || || |||||  | || ||||| || || | 
gtagtactacgctgttacgcacgcacgcgcttgcttgctgcatacatgtctatgcggccatgc-atacatgcctctgccgtccgtctgccctccccgatgcatatatggccgatcctgatcgtcgagccggtg-accgatgcagAGAAGTGCCGCATCGGTTCGGGCCCCCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGCGCACCAACCGCGCCACCGC

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G092465_T03 (Zea mays), 3'ss of exon 1
gttaaaccc--taaatatgaaaaaaaactctttcatttctacgaact--ctctatttctttgttctttatttttgaaccat-tttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
 | |||| |  |  |  | |       ||   |  |  |||  ||||    ||| | ||     |  ||  |     ||||   ||| |  |    |||||| |||| |  ||||| ||    || || |||||||||||||||||||||||||||||||||||||| || || |||||  | || ||||| || || | 
atcaaacgcgatcgaattcatcgcgcgctaactactggctaacaactgctactactactaaagccgctagctccattccatgcatggaaatcgcgcgcagAGAAATGCAAGATCGGGTCGGGTCCCCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGCGCACCAACCGCGCCACGGC

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G091490_T01 (Zea mays), 3'ss of exon 1
------------------gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatg--caaa--------tgcagAGGAATGTAGAATCGGTTCAACGCCA------CAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                    ||    ||   || || | | |   | |     ||  | | |||  |  ||     | |  |   |   |   |  | |  | |  |  |        ||||||  | ||  |  |||| ||  || ||      || ||||||||||||||||||||||||||||||| |||||| || || |||||  | || ||||| ||      
gtatgcatccatgcatatagtaggatctgtgtacgagacaca-tgcatgatcatcgtctatctcattgcttgcgcatgcaatgcatgaaacttacatggcgacgaccggactgacccctgcagACAAGTGCCGCGTCGGGTCGTCGTCAGGCCCTCAGAACGACTGGTACTTCTTCAGCCACAAGGACAGGAAGTACCCGACGGGGACGCGCACCAACCGCGC------

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G44890.1 (Glycine max), 3'ss of exon 1
gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                        |   |||  |||   |     ||    |  ||  |   |  |   || |     ||  | ||    |||||||   || | ||| ||    |  ||||||||||| |||||||| ||||||||||||||||||||||| || || || | | | || ||||| || |   |
---------------------gtgatgattttttttgctcagtagctaagataattgatgagtagtgcatgtaattaattaatttg----tgcagAGATGTGCAAAATAGGAAGCAGCCCACAAAACGATTGGTACTTGTTCAGCCACAAGGACAAGAAGTACCCCACGGGAAGCCGCACCAACCGCGCCATCAT

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G44910.1 (Glycine max), 3'ss of exon 1
gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                            |    ||| | | || |  |||     |  ||  | | |  || |     ||| |       |||||||   || | ||| ||    |  ||||||||||| |||||||| |||||||||||| |||||||||| || || || | | | || ||||| || ||   
------------------------gtgatgatttttttgctaagtagctaaga--taattaatgagtagtgcatgtaattgattaatttgtgcagAGATGTGCAAAATAGGAAGCAGCCCACAAAACGATTGGTACTTGTTCAGCCACAAGTACAAGAAGTACCCCACGGGAAGCCGCACAAACCGCGCCACCAG

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S1_447V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------------------------------------------------------------------------------gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGT---------TCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                                                                                                || ||| |    | ||    |   | ||   ||| | |  |  | || || ||       |  |      |   |    | | ||   || |||| |  || || || ||           ||  |   ||||||||||||||||||||||||||||| ||||| ||||| ||  | || |   |  |||||||         
gtaagaatcgatcagaatcctcggtgtactatgtatgacaccagactagaaaacacgtcctcacatgcttcgttgccccatttcagtctattaagattgaactcatggtgtgttcga--gccctgggattgcaattagat-tccatgtccactacgtacacggacaagtaaccccgatgtggtcat-cagAAGTGTGCAGGATTGGGGACGACCCACCAGAGAATCAAAACGACTGGTACTTCTTCAGCCACAAAGACAAAAAGTACCCCTCGGGCAATCGAGCGAACCG---------

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S102_187V6.1 (Physcomitrella patens), 3'ss of exon 1
----------------------------gttaaaccctaaatatgaaaaaaa-actctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGT----TCAACGCCA-----CAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT-
                             || |      ||| |     | | |   |||   || |  ||    |  || ||||  | |  |  |  |   | ||||| ||  || |   ||| || ||| || |||||     ||| | ||      || |  |||||||||||||||||||||||||| ||||| |||||   ||||| | |  | || || || || |  
gcatgaacatgctcatttgaaggacatatttgagtttcgaatttctcccacatagagtttttgttttgggattggtggatatcttgatac--tgatgatattcaatttttgtg-gcgatgtcaggggtatgcagGATCGGGGACGTCACCACCGAAGACCAGAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAATATCCTTGCGGGAACCGTGCAAATCGAGCCACCGCC

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S6_458V6.1 (Physcomitrella patens), 3'ss of exon 1
--------------------------------------------------------------------gttaaacccta--aatatgaaaaaaaactctttcatttctacgaac-tctctatttctttgttctttattt-ttga----accattttggtatgcaaatgca---gAGGAATGTAGAATCGGTT-CAACGCCAC--------AAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                                                                     || |   | |  |||||  ||| | |       || | ||   |  | | ||| |     | || ||  |  |||    ||||| |     |||     ||   ||||  || ||||| ||   | ||||  |        | | ||||||||||||||||||||||||||||||||| ||||| || || | | |  | |||||         
gtaagccaacgaacccacattttgcaggatttcattaacgttggttgaggttagaaaactggaactcgctttagttcgaggaatatataaatagatatggatatatatatatatatatatatatgagaatactctaagtactgataacaccatctgtacttgcggcgacatcagAGGTGTGCAGAATTGGCGACGACGCACCCGAGAATCAGAGCGACTGGTACTTCTTCAGCCACAAGGACAAGAAATATCCTACTGGAAACCGCGCAAACCG---------

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S182_37V6.1 (Physcomitrella patens), 3'ss of exon 1
-------------------------------------------------------------------------------------------------gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctc-tatttctttgttctttatttttga-accattttggtatgcaaatgcagAGGAATGTAGAATCGGT---------TCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                                                                                                  ||     | | ||| |   || | |   |||   ||  | |    |   ||    | || |   | | |||| |  |  ||| |   |  || |||| |  || || |||||           ||  ||  ||||  |||||||||||||||||||||||||| ||||||||||| || || | | |  | |||||         
gtaagcatcggaatcctgaaggtagtatggtgcagtgttcaacctcctcatctagtttcgtcaaaaaataaacatttaaaacagtactatccattgaattgtgatcaacataagctcaagagcatgttctcctcatctattgatagcatgaaatggtccagcagtattgacaaaaacttgttgcaccgat-cagAAGTGTGCAGGATCGGGGACGACGCACCAGAGCATCAAAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAGTATCCCACAGGAAACCGTGCCAACCG---------

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S77_42V6.1 (Physcomitrella patens), 3'ss of exon 1
--------gttaaaccctaaatatgaaaaaaaactctttcatttctac-gaactctctatttctttgttctttatttttgaaccat----tttggtatgcaaatgcagAGGAATGTAGA-ATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
         | | || | |      |    || | | | ||| |  |  | | ||          | ||    |||  | |   ||    |    |    |  |    | || |  ||    |  |||   |   || ||| ||||||||||||| ||||| |||||||||||||| || ||||| | | |  | |||||         
gcaagatcatcacactcaagtgccaacctgaagcacgtgcatgtacattgtaatccaaggaagagtattgggcattgctaactgatagcgtccattgcagAGGTATGCAAGATTCCAGGCGACCATTCCGTGAACCAGAACAACTGGTACTTCTTTAGCCATAAGGACAAGAAGTACCCCACCGGCAACCGCGCCAACCG---------

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S161_73V6.1 (Physcomitrella patens), 3'ss of exon 2
-------------------------------------------------------------------------------------------gttaaaccctaaatatgaaaaaaaactctttcattt--ctacgaactc---tctatttctttgt-tctttatttttga--accattttggtatgcaaatgcagAGGAATGTAGAA-TCGGTTCAAC---GCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                                                                                               |       || |||  |||||| |    |  |  |   ||| ||   ||| ||  |     |||  |  |  ||    |  |||  |     |  ||   | ||  |  |   || |||||    |   |||| |||||  ||||||||||| | ||||||||||||||||||||| || | | |  | |||||         
gtcagtacaaactcattgcagttttttttttgtttttgtttttttaaagcaatttactcgttgaaagatatcaatagattcagaagtcagaacagagtataggatttgatcaaaaaccccacaacctgacattgaattcgactctgttcatcctcatctaaacatccgatggtctctttcatggaacagAGCTCTGCAAGATCCAGGCCGATTCAAATGAGAAGCAAACCGACTACTACTTCTTCAGTCGCAAGGACAAGAAGTATCCAACTGGCAACCGAGCCAACCG---------

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ32131 (Selaginella moellendorffii), 3'ss of exon 1
----------------------gttaaaccctaaatatgaaaaaaaactctttca---tttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                       |   |      | |  |||||    |||||     | | | ||  ||   | | ||||   ||  |    | ||   |||  | |   || |  ||||    ||  |||| || ||  ||   ||  |||| |||||||||||||||||||| |||||||| || || |||||||| ||||| ||| | || || | 
gtaagacggtcatccctcaagcttctcatttcggaaaaaaaaaaccgttctttggaagtctttgcgttctaaatgtctcttctctcactgccatcgatgaattgcgtttgccacacacagAACGGTGCCGAATTGGCTCCGCGGAGCAGCACGAGTGGTACTTCTTCAGCCACAAAGACAAGAAATACCCGACCGGGACGAGGACCAACAGAGCCACCGG

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ22020 (Selaginella moellendorffii), 3'ss of exon 1
gttaaaccctaaatatgaaaaaaaactctttcatttc--tacga--actctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                 |    |  ||| | ||||||  || ||   | | | | |      |  || ||| ||   | |||||||          ||||| | ||||  ||||| ||| |   ||||| ||| |||||||| ||||| |||||||||||||||||||| || || ||  | || ||| | || || | 
---------------gtagtctagtctcctccatttcgatatgattgcacaccactgacacctctttcattgttcttcgattttgg----------cagAGAAGTGTAAGATCGGATCAGCTGAACAAACCGAATGGTACTTTTTCAGTCACAAGGACAAGAAGTATCCCACGGGAACTCGCACCAACAGAGCCACCGC

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ37712 (Selaginella moellendorffii), 3'ss of exon 1
-----------------------gttaaaccctaaatatgaaaaaaaactctttca---tttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                         | |   |   | |  |||||    |||||     | | | ||  ||   | | ||||   ||  |    | ||   |||  | |   || |  ||||    ||  |||| || ||  ||   ||  |||| |||||||||||||||||||| |||||||| || || |||||||| ||||| ||| | || || | 
gtaagacggtcatccctcaagcttctcatttcgggaaaaaaaaaaccgttctttggaagtctttgcgttctaaatgtctcttctctcactgccatcgatgaattgcgtttgccacacacagAACGGTGCCGAATTGGCTCCGCGGAGCAGCACGAGTGGTACTTCTTCAGCCACAAAGACAAGAAATACCCGACCGGGACGAGGACCAACAGAGCCACCGG

upper sequence: AT1G32770.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ18283 (Selaginella moellendorffii), 3'ss of exon 1
gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
                 |    |  ||| | |||||| ||    |  | |   |  ||     | |||        ||    | ||     |||||| | ||||  ||||| ||| |   ||||| ||| |||||||| ||||| |||||||||||||||||||| || || ||  | || ||| | || || | 
---------------gtagtctagtctcctccatttcgacatgattac-acaccactgacacctctttcattgttcttcgattttg-----gcagAGAAGTGTAAGATCGGATCAGCTGAACAAACCGAATGGTACTTTTTCAGTCACAAGGACAAGAAGTATCCCACGGGAACTCGCACCAACAGAGCCACCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT
        tatttctttgttcttt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaaaccctaaatatgaaaaaaaactctttcatttctacgaactctctatttctttgttctttatttttgaaccattttggtatgcaaatgcagAGGAATGTAGAATCGGTTCAACGCCACAAAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTATCCAACCGGGACCAGGACGAACCGGGCAACAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT