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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAATGCCAATTATTTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTGATTCTGCAACAGATGCCATTTTACAAAGGgtcctcaggcatgaattctctgaatgcacagttataaatgtggctcacagagttccaactgtaatagacagtgacatggtcatggtcctgtcttatgtta...

Basic information

species Glycine max
transcript GLYMA07G01380.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01380.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os06g36650.1 (Oryza sativa), 5'ss of exon 11
---------------------------------------------------ACAATGCCAATTATTTT--GCCTTGG-AAGGTT----TCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCA--TTGATTCTGCAACAGATGCCATTTTACAAAGGgtcctcaggcatgaattc-tctgaatgcacagttataaatgtggctcacaga-gttccaactgtaatagacagtgacatggtcatggtcctgtcttatgtta--
                                                   |   | |||| | |      |  ||  |||||     |  | | | | || |    | |  |       ||  ||   ||| | |   |   | |   |  | ||       ||||  |     ||| |||||  || | || ||  |    || || | |    |      || | |   |   || | | |||| |||    | |||    
AGGGTCATCAGGCAGCAATTCTCAAGTTGCACTGTGGTAACTATCGCTCACAGGGTTCCAACTGTAACAGACAGTGACAAGGTCATGGTACTTTCATATGgtaagttactacacacacgcatatcaatctgaatatctgaggaaggttctggtccagtcatcgctcatccgaaccttcctctgatggccctgtcatccaaactgcacatatataaactgcacatatttggatgattcaagctgatggcccttctgtttgtgcag

upper sequence: GLYMA07G01380.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G113203_T01 (Zea mays), 5'ss of exon 10
------------------------------ACAATGCCAATTAT--TTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTG-ATTCTGCAACAGATGCCATTTTACAAAGGgtcctcaggcatgaattctctgaatgcacagttataaatgtggctcacagagttccaac-tgtaatagacagtgacatggtcatggt-cctgtcttatgtta----------------------------------------------------
                              ||  |   ||  ||   |  |   | |     | |   | | ||  | |   |  | ||  |    | |  |   || | ||| | ||      | |   ||  ||  |||  | |     |             ||| | | || |  | | | |  |||    | |||     |   |     ||    ||   ||||   ||                                                    
AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttatacaagacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag

upper sequence: GLYMA07G01380.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G059159_T01 (Zea mays), 5'ss of exon 3
------------------------------ACAATGCCAATTAT--TTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTG-ATTCTGCAACAGATGCCATTTTACAAAGGgtcctcaggcatgaattctctgaatgcacagttataaatgtggctcacagagttccaac-tgtaatagacagtgacatggtcatggt-cctgtcttatgtta----------------------------------------------------
                              ||  |   ||  ||   |  |   | |     | |   | | ||  | |   |  | ||  |    | |  |   || | ||| | ||      | |   ||  ||  |||  | |     |             ||| | | || |  | | | |  |||    | |||     |   |     ||    ||   ||||   ||                                                    
AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtatgttatacaaaacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag

upper sequence: GLYMA07G01380.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G21250.2 (Arabidopsis thaliana), 5'ss of exon 11
ACAATGCCAATTATTTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTGATTCTGCAACAGATGCCATTTTACAAAGGgtcctcaggcatgaattctctgaatgcacagttataaatgtggctcacagagttccaactgtaatagacagtgacatggtcatggtcctgtcttatgtta-
               ||      ||||  ||  |  | |  | |     ||   ||||| | ||    |     |||  | |||        |    | ||| |||     ||  |   |   ||   |  | ||   |    |||  | |   | |    ||||   || |||    ||   |||  ||  ||  | || 
-----------AGAATTATAAGAGAAGAGTT--TGCAGACTGTACAGTGATAACAGTTGCACATAGAGTACCAACTGTCATAGACAGTGACATGGTCATGGTTCTCTCTTTTGg-taaacaacattttctctcattctttcatctcttaaa--cctactcataatgaccaatgaatgagtttcggttttggttttggatag

upper sequence: GLYMA07G01380.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 5'ss of exon 22
ACAATGCCAATTATTTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTGATTCTGCA---ACAGATGCCATTTTACAAAGGgtcctcaggcatga-attc--tctgaatgcacagtta---taaatgtggctcacagagttccaactgtaatagacag-tgacatggt-catggtcctgtcttatgtta---
               ||  |  | | |  |||||      |    ||   |  ||   |||| |  ||  | | |  ||   | ||||       |    | |||||||    |||  || |  |   ||| ||    ||    |  | |||   |  | |||     | | |    ||  | ||||     || |    || | || ||    
-----------AGAATTATCAGGCAGGAATTCTT-----GAACTGTACGGTGATAACAGTAGCTCACAGAGTTCCCACAGTTATAGATAGTGACATGGTCATGGTCCTCTCTTATGgtatgcaattccaatccaagcctaagccagttttggagtattgggtttttggtattaaccccaacttacataaaatatcggttggtttgattttgtag

upper sequence: GLYMA07G01380.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0002g02440.t01 (Vitis vinifera), 5'ss of exon 10
ACAATGCCAATTATTTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTGATTCTGCA---ACAGATGCCATTTTACAAAGGgtcctcaggcatga-attc--tctgaatgcacagtta---taaatgtggctcacagagttccaactgtaatagacagtgacatggt-catggtcctgtcttatgtta---
               ||  |    | |  ||||      ||    || | |  ||   |||| |  ||  | | |  ||   | ||||  |    |    | |||||||    |||  || |  |   ||| ||    ||    |  | |||  ||  | |||     ||  |     | | ||||     || |    || | || ||    
-----------AGAATTATCAGACAGGAATTCTC-----AAATTGTACAGTGATAACAGTAGCTCACAGAGTTCCCACACTCATAGATAGCGACATGGTCATGGTCCTCTCTTATGgtatgcaattccaatccaagcctaagccagttttggagcattgggtttttggtgctaacccaacttacataaaatatcggttggtttgattttgtag

upper sequence: GLYMA07G01380.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 5'ss of exon 11
---ACAAT--GCCAATTATTTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTGATTCTGCAACAGATGCCATTTTACAAAGGgtcctcaggcatgaattctctgaatgcacagttataaatgtggctcacagagttccaactgtaatagacagtgacatggtcatggtcctgtcttatgtta
   |  ||  | ||   ||| |      | |   |  ||  |  |    | ||| ||  |   ||      || |||    |  |  | | |  | |||      |   | |    |  | ||     ||     ||  |   | | | | | |  |  ||| || | ||| ||| ||   ||||  || |  |||         
AGAATTATCAGGCAGGAATTCTCAAACTGTACAGTGATTACAGTAGCTCACAGAGTTCCAACAGTCATGGACAGTGACATGGTCAT-GGTCCTCTCTTATGgtatgaaattat---tccactccgcagatttggggtactgggttttgttgatattgagccagctttcataaacactggt-tggtt-tgattttgtag-------

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAATGCCAATTATTTTGCCTTGGAAGGTTTCTTCTAAAAAGGAATAGAATTTTAGTTGTAGATTCCATTGATTCTGCAACAGATGCCATTTTACAAAGGgtcctcaggcatgaattctctgaatgcacagttataaatgtggctcacagagttccaactgtaatagacagtgacatggtcatggtcctgtcttatgtta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG