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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagctattttcatactcgtgtacagatctgagctttgaacaatttgtacatcagtcactaagttgctgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT

Basic information

species Zea mays
transcript GRMZM2G149238_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g39070.1 (Oryza sativa), 3'ss of exon 5
---------------gtagctattttcatactcgtgtacagatctgagctttgaac------aatttgtacatcagtcactaagttgct-gttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
                |   || |||   |   ||| | |   ||    |||  |       |  |||||| | | |   ||| |   | |  |||| ||||||||| ||||||||||| |||||||| ||||||||||| || |||||||| ||||| ||||| ||||| |||||||||||||| |||||||||
gtaactatttcaggcttgattaatttt-catctgtgcaaatgcctaccattttcattctgtaagattgtacctaaatgtttaactcatttgcactataccagGACTTCAAGATTCAGAACATTGTTGGTTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATATTCTCATGGTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 3'ss of exon 6
----------gtagctattttcatactcgtgtacagatctgagctttgaaca--------atttgtacatcagtcactaagttgctgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
            ||||   || ||  || | |    || ||       || |        | |||||| | | |   ||| |   ||  |||| |||||| || ||||||||||| |||||||||||||||||||| || |||||||| ||||| ||||| ||||| |||||||||||||| |||||||||
gtaactatttcaagcttgcttgattttcatctgtgcatgtgcctaccaaatacattctgtaattgtacctaactgtttaactcattgcactataccagGATTTCAAGATTCAGAACATTGTTGGCTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATATTCTCATGGTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G25450.3 (Glycine max), 3'ss of exon 6
--------------------gtagctattttcatactcgtgtacagatctgagctttgaacaatttgtacatcagtcactaagttgc-tgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
                      | | || ||  |  |  | | |  |    | || ||      |||   |  | |   |   |||  | || |   | |||| || || |||||||| ||||| |||||||||||||| ||||| || ||  |||| ||||| ||||| ||||| |||||||| |||||||||
gtactgcttttgctctttctcaatccatgttttttgttcttttctcactgtaactatgttgtgcttgattactaattggttccttgggtattatgctctagGATTTCAAAATTCAGAACATTGTCGGCTCTTGTGATGTCAAGTTCCCCATACGGCTGGAGGGTCTTGCATATTCCCATGGTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G41330.2 (Glycine max), 3'ss of exon 5
-----------------gtagctattttcatactcgtgtacagatctg-agctttgaacaat--ttgtacatcagtcactaagttgctgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
                   |   |||||   | | || | |   |||  ||          |  |  |  ||   |  ||   |   | ||||     |||| |||||||||||||| |||||||||||||||||||| ||||| || ||| | |||||||| ||||||||||| |||||||| |||||||||
tttaaggttcaacatctccaaaaattttatcagttgttttccactctacagaagcagtttgtggtcattgatttattcctttttctttattctgctttagGATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATGGTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G28780.1 (Glycine max), 3'ss of exon 6
-----gtagctattttcatactcgtgt--acagatctgagctttgaacaatttgtacatcagtcactaagttgct-----------gttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
       | ||| | | | | |  | |     | | |   || |  | || | ||   |  |||| | | ||  |            ||||     |||| |||||||||||||| |||||||||||||||||||| ||||| || ||| | |||||||| ||||||||||| ||| |||| |||||||||
gtacaacatctactctgaaaattttatcagttgttttccactctacagaagtagtttgt-ggtcattgatttattcctttttctttattctgctttagGATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATAGTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G44460.1 (Glycine max), 3'ss of exon 5
------gtagctattttcatactcgtgtacagatctgagctttg----aacaatttgtacatcagtcactaagt--------tgctgttctatgcc--agGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
        | |   | | | | | ||     | | |   || |     |  | |||||  |||| | ||| | |        | || || | |||   |||| ||||||||||||||||||||||||||||||||||||||||| || ||| | || ||||| ||||||||||| |||||||| |||||||| 
ggtacaacatccgctctgaaaattgtcagttgttttccactctacagaagtagtttgtg-atcattgacttattccttttttttcttttttgtgctttaGGATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTCCCCATTCGACTGGAGGGTCTTGCCTATTCCCATGGTGCTTTCTCAAG-

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA03G04500.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------------------------------gtagctattttcatactcgtgtacagatctgagctttgaacaatttgtacatcagtcactaagttgc-tgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
                                                                                   | | |||||  |  |  | | |  |    |  | || |   ||||   |  | |   |   |||  | || |     |||| || || |||||||| ||||| |||||||||||||| ||||| || ||  |||| ||||| ||||| ||||| |||||||| |||||||||
gtactgcttctgctctttctcataatctttgctgaaattattgaaaagcgctattttaaaaattttctattttcccccatttaatccattttggtcgttcttttctcactataattatgtagtgtttgattactaattggttctttgggtattatgctttagGATTTCAAAATTCAGAACATTGTCGGCTCTTGTGATGTCAAGTTCCCCATACGGCTGGAGGGTCTTGCATATTCCCATGGTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G06370.1 (Glycine max), 3'ss of exon 2
-------------------gtagctattttcatactcgtgtacagatctgagctttgaacaatttgtacatcagtcactaagttgc-tgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
                     | | || ||     |  | | |  |    | || || |   ||||   |  | |   |   |||  | || |     |||| || || |||||||  ||||| |||||||||||||| ||||| || || | ||| ||||| ||||| ||||| |||||||| |||||||||
aatctttgctggaactgtttaatccatgtttgctgttcttttctcactgtaactatgtagtgtttgattactaattggttccttgggtattatgctttagGATTTCAAAATTCAGATCATTGTCGGCTCTTGTGATGTCAAGTTCCCCAT-ATGCTGGAGGGTCTTGCATATTCCCATGGTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G41330.1 (Glycine max), 3'ss of exon 6
-----------gtagctattttcatactcgtgtacagatctg-agctttgaacaat--ttgtacatcagtcactaagttgctgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
             |   |||||   | | || | |   |||  ||          |  |  |  ||   |  ||   |   | ||||     |||| |||||||||||||| |||||||||||||||||||| ||||| || ||| | |||||||| ||||||||||| |||||||| |||||||||
gttcaacatctccaaaaattttatcagttgttttccactctacagaagcagtttgtggtcattgatttattcctttttctttattctgctttagGATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATGGTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: AT3G13445.1 (Arabidopsis thaliana), 3'ss of exon 6
------------gtagctattttcatactcgtgtacagatctgagctttgaacaatttgtacatcagtcactaagttgctgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
              | |  ||| | ||  |    |||  | |   |||        || |||   |   | | | ||| |      ||| |||| || ||||||||||||||||| || ||||||||||| || || || || || ||||| || ||||| || ||||| | ||| |||||||||
gtacaatttctttaaaccttttccctatcca---acattttttttcttacttttgcttatactaaatatattcaattgttacatcctgc-agGATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: AT1G55520.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------------------------------gtagctattttcat-----actcgtgtacagatctgagctttgaacaatttgtacat------cagtcactaagttgctgttc---tatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
                                                   |   ||| |  ||     | ||||||  |  | |       | | || ||    ||       ||| |  || |||||| |    | |  ||||| |||||||| ||||| ||||| ||||| |||||||| || || || ||||||||||| || ||||| || |||||| |||| |||||||||
gtactcatatgtctctctctggtcctgatccagcacacactgtgttattcatttttatctcaatcaacaattcgtgtgtatttttatcggaaggaaaaattacgtataaagtctagtaataaaattgctgattacattttgcagGATTTTAAGATACAGAACATTGTAGGCTCATGTGATGTCAAATTCCCCATTAGGCTTGAAGGTCTTGCATACTCTCATAGTGCTTTCTCAAGT

upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 5
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------------gtagctattttcatactcgtgtacagatctg---agctttgaacaatttgtacatcagtcactaagtt--gctgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
                                           |  || || |  || || | | |   | |      |  ||  |   || || ||      ||   ||    |||   |||  |||| |||||||||||||| || |||||||| |||||||| || || || || |||||||| |||||||| ||||||||||||||||| || || 
gtatttattccattacatctctctctctctgtgatgtagccaatttctgttatgctattcttctccttgtttttttgccactgttcttattttatattgactgctgttttttattgtgggatgt-agGATTTTAAGATTCAGAACATAGTTGGCTCCTGTGATGTTAAATTCCCCATAAGGCTTGAAGGCCTTGCATATTCTCATGGTGCCTTTTCCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatctgagctttgaacaatttgtacatcagtcactaagttgctgttctatgccagGACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGT
                                         ctgttct  CT-rich tract
             aacaattt  TA-rich tract