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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttgttgaacaatctgccattttatcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTGTTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA

Basic information

species Zea mays
transcript GRMZM2G701776_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 6
-gtttgttgttgaacaatctgccattt-tatcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTG-TTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
  |||    || ||  | |||   ||  | |||| |||||  ||| | || |  ||| |  |  || || ||  ||||||||||||| ||||||| || ||||||||||||||||||||||| |||||||||||||| ||||| |||||||| ||||||||||||||||| ||||||||||||  
gtttttccatttaatgacctgttgttaatgtcttgtaaaa--tgaaacagcacaccattaaatatgcaattttgttacttgcagGTGCTTAACCAAGACGAAACACCCCTACTCTATAGTCTGGTTTTTGGTGAAGGGGTTGTCAATGATGCTACATCTGTTGTGCTCTTTAATGCAATTGAAG-

upper sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 6
gtttgttgttgaacaatctgccattttatcttataa--aaattgagataggaagccaatttaattggaaattcattacttgcagGTGTTAA-CCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
|||||  |    | | | |   | ||  || |  ||  ||  |   |  |  ||  | |  | ||  ||||  || |  |||||||| |||  |||||||| |||||  | || || ||||| || ||||| || |||||||| |||||||| ||||| || ||||| |||||||||||  ||| 
gtttgaagcaatatatttttaaaattcttccttcaactaaggtatcactgctagttactgaacttataaatg-atga--tgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA-

upper sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA03G40290.1 (Glycine max), 3'ss of exon 5
gtttgttgttgaacaatctg--ccattttatcttataaaaattgagataggaagccaat--ttaattggaaattcattact-----tgcagGTGTTAA-CCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
    ||| | ||||||| ||  || ||||     |         |   | |  | ||||  ||| |    || | || | |     |||||||| ||| ||||||||| |||||  |||| || ||||| || ||||| || |||||||| |||||||| |||||||| ||||| |||||||||||  ||| 
----gtt-tggaacaatatgtgcctttttccgcaacgttgcagcaaccaaggtgtcaatgcttagtactgaacttataaatgatgttgcagGTGCTAAACCAGGATGAGACACCTTTACTGTACAGTCTTGTATTTGGCGAGGGTGTTGTGAATGATGCTACATCTGTGGTGCTTTTCAATGCAATCAAAA-

upper sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G42900.1 (Glycine max), 3'ss of exon 5
gtttgttgttgaacaatctgccattttatcttataaaaattgagat-aggaagccaat--ttaattggaaattcattact-----tgcagGTGTTAA-CCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
    ||| | |||| || ||    ||| ||  |    |   |  |  | |  | ||||  | | |    |||| || | |     |||||||| ||| ||||||||| |||||  |||| || ||||| || ||||| || |||||||| |||||||| |||||||||||||| || ||||||||  ||| 
----gtt-tggaacgatatgtgcctttttcgcaatgtagcagcaacgaaggtgtcaatgctaagtactgaatttataaatgatgttgcagGTGCTAAACCAGGATGAGACACCTTTACTGTACAGTCTTGTATTTGGCGAGGGTGTTGTGAATGATGCTACATCTGTTGTGCTTTTTAATGCAATAAAAA-

upper sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 6
gtttgttgttgaacaatctgccattttatcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTGTTAA-CCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
|||||    |  |   | |    | ||   | |   ||  |   |  |  ||  | |  | ||  ||||  || |  |||||||| |||  |||||||| |||||  | || || ||||| || ||||| || |||||||| |||||||| ||||| || ||||| |||||||||||  ||| 
gtttgaaaatatattttttaaattcttccttcaactaaggtatcactgctagttactgaacttataaatg-atga--tgcagGTGCTAAATCAGGATGAGACACCTTTGCTGTACAGTCTTGTATTTGGGGAGGGTGTTGTGAATGATGCTACATCAGTGGTGCTTTTCAATGCAATCCAAA-

upper sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 6
--------gtttgttgttgaacaatctgccattttatctta-taaaaattgagataggaagccaatttaattggaaattcattacttgcagGTG-TTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
         ||| || |  |||| ||    || ||||  || || |  ||   ||   ||   || ||    |    ||  |||  |  ||||| |||| || || || ||||| ||  | || ||||| || ||||| |||||||| || || ||||||||||| || |||||||||||||||||  | | 
gtaagaactttttttctgaaacattcaaagatattattctactacattttctaatcaaaaattaacttgcacgc---tttgttaaatctagGTGCTTAATCAAGACGAGACACCTCTCTTGTACAGTCTTGTCTTTGGAGAAGGTGTAGTGAACGATGCCACATCGGTCGTGCTCTTCAATGCAATACAGA-

upper sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
gtt-tgttgttgaacaatctgccattttatcttataaaaattgagataggaagccaatttaattggaaat-tcattactt-------gcagGTGTT-AACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
||  |||  ||   ||||  ||     ||    ||| |     |||    |||   | ||||    || | |  || |||        |||||  | || || ||||| |||||  | || || ||||| || ||||| || || ||||| |||||||||||||||||||||||||||||||| ||| | | 
gtaatgtgattcgccaattagcagaagtac---atacaggcccagaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA-

upper sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
--gtttgttgttgaac-aatctgccattttatcttataaaaattgagataggaagc-----caatttaattggaaattcattacttgcagGTG-TTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
       | |    || || |||  ||  |   |||  |    | ||  |  |  |     ||| ||| ||    | ||      |||||||| |||| |||||||| |||||| ||||||| ||||| |||||||| ||||||||||| ||||||||||||||||| ||||| |||||||||||  | | 
gtacagatggccttactaagctgtgatcctg--ttactagttctaagggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA-

upper sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 5
--gtttgttgttgaacaat-ctgccattttatctt-ataaaaattgagataggaag---ccaatttaattggaaattcattacttgcagGTGTT-AACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
   |   |   |   |||  |||  ||| |   |  ||||        |||| |     |  | | || |    ||    || | ||||||| | || |||||||| |||||  | || || |||||||| ||||| |||||||| || |||||||||||||||||                        
gtatagatatcttctcaaggctgtgattctgcttccataatggggacaatagaacatttctgactaaagtttgcatctgata-tggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG-----------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTGTTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA
                            atttaat  putative branch site (score: 4)
                           aatttaattggaaatt  TA-rich tract