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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAATGTAGCAAGATGCCTAGGTATTCCAGAAAATAATGTTCGTGTCATTACAAGAAGGGTTGGTGGAGGTTTTGGTGGAAAGGCCTTGAGAGCCACAGCAgtaagtttttagttgtgtactatgcttttgaaaatatttcttctttttttattagatttgttatcacttcttaaatatgactaattaacatagagtctag...

Basic information

species Glycine max
transcript GLYMA02G44000.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G44000.3 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os07g18120.1 (Oryza sativa), 5'ss of exon 5
TAATGTAGCAAGATGCCTAGGTATTCCAGAAAATAATGTTCGTGTCATTACAAGAAGGGTTGGTGGAGGTTTTGGTGGAAAGGCCTTGAGAGCCACAGCA-
|    |  | |  ||||| || ||||||   || ||||| ||||||||||||||||||| ||| || || ||||||||||||||  | |||  |||  || || ||| | || ||   | ||  |   |  | |   |||   | | ||||  |    ||     |    | |  ||  | ||     ||     | |  |    
TGTCATTTCCAAGTGCCTCGGCATTCCATTCAACAATGTACGTGTCATTACAAGAAGGGCTGGAGGTGGCTTTGGTGGAAAGGCAGTCAGA-TCACTCCATgtgagtatctaatttattatatcacagtagtctagtaattgctatgctttactatgaagggaaatctatattgtttttacattttccatgtggttcgcat----

upper sequence: GLYMA02G44000.3 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g57690.1 (Oryza sativa), 5'ss of exon 5
TAATGTAGCAAGATGCCTAGGTATTCCAGAAAATAATGTTCGTGTCATTACAAGAAGGGTTGGTGGAGGTTTTGGTGGAAAGGCCTTGAGAGCCACAGCAgtaagtttttagttgtg-tactatgcttttgaaaatatttcttctttttttattagatttgttatcacttcttaaa-tatgactaattaacatagagtctag
|| ||| || || ||||| || |||||| |  | ||||| ||| |||| || ||||| ||||| ||||||||||||||||||||  ||| ||| | |   || ||  | |   | || |  | ||| |||| | |    |  | || ||  | | |     || || | ||| |   | |   || |     || | |  | 
TACTGTTGCGAGGTGCCTTGGCATTCCATATCACAATGTCCGTATCATCACGAGAAGAGTTGGAGGAGGTTTTGGTGGAAAGGCAATGAAAGCAATACATgtgagcatctgactatgatgatttgcatttgcagaacaattatattcttgaactggtggaatt-tctcgtctaactctgtagttattcgtactacaatgca-

upper sequence: GLYMA02G44000.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0041g02390.t01 (Vitis vinifera), 5'ss of exon 4
TAATGTAGCAAGATGCCTAGGTATTCCAGAAAATAATGTTCGTGTCATTACAAGAAGGGTTGGTGGAGGTTTTGGTGGAAAGGCCTTGAGAGCCACAGCAgtaagtttttagttgtgtactatgcttttgaaaatatttcttctttttttattagatttgttatcacttcttaaatatgactaattaacatagagtctag-----
|    | |||||||| || |||||||| ||| ||||||| ||||| || |||||||||||||| || |||||||||||||||||| | ||||| |   | || |||   || |||   |  ||   |||| |  | | | | | | |     ||          || ||     | |  || ||  || | | |  |        
TGCGATTGCAAGATGTCTTGGTATTCCTGAACATAATGTACGTGTGATCACAAGAAGGGTTGGAGGTGGTTTTGGTGGAAAGGCCATAAGAGCAATGCCTgtgagta--taattg---atgattactttgcatgtttgtgtccatgtggccataagagcaaggacatttgaaggaaaatacaaaggaaaacacacacacacacac

upper sequence: GLYMA02G44000.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv06s0009g00770.t01 (Vitis vinifera), 5'ss of exon 5
TAATGTAGCAAGATGCCTAGGTATTCCAGAAAATAATGTTCGTGTCATTACAAGAAGGGTTGGTGGAGGTTTTGGTGGAAAGGCCTTGAGAGCCACAGCAgtaagtttttagttgtgtactatgcttttgaaaatatttcttctttttttattagatttgttatcacttcttaaatatgactaattaacatagagtctag------
|| | |  | ||||| || |||||||| ||| ||||||||||||| || |||||||||||||| || |||||||||||||||||| | ||||| |   | || ||| | ||  | |    ||  ||| ||    | ||||      | | | |  | |  ||||        | | |  |  || |   ||  ||  |        
TACTATTTCGAGATGTCTTGGTATTCCTGAACATAATGTTCGTGTGATCACAAGAAGGGTTGGAGGTGGTTTTGGTGGAAAGGCCATAAGAGCAATGCCTgtgagtatataagtatccgttac-cttgtg----tgtttccatccatatgaatgaaataattattggaaaa-agagagaaagaagtgcgatgaaggttgagctgta

upper sequence: GLYMA02G44000.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0041g02410.t01 (Vitis vinifera), 5'ss of exon 5
TAATGTAGCAAGATGCCTAGGTATTCCAGAAAATAATGTTCGTGTCATTACAAGAAGGGTTGGTGGAGGTTTTGGTGGAAAGGCCTTGAGAGCCACAGCAgtaagtttttagttgtgtactatgcttttgaaaatatttcttctttttttattagatttg-ttatcacttcttaaatatgactaattaacatagagtctag
||   |  | ||||| || |||||||| ||| | ||||| ||||| || |||||||||||||| || |||||||||||||||||| ||| ||| |  || || ||| | || |||     ||   || ||    | | ||    |     |     |  |   ||         |||| ||  ||   ||| | |  |   
TACGATTTCGAGATGTCTTGGTATTCCTGAACACAATGTCCGTGTGATCACAAGAAGGGTTGGAGGTGGTTTTGGTGGAAAGGCCATGAAAGCAATTGCTgtgagtatataattgatggttaca-ttgtgtgtttgtgtccatatggccaaaagagtacggccatttgaaggagaatacgaggaaaacacacatacacaca

upper sequence: GLYMA02G44000.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0041g02430.t01 (Vitis vinifera), 5'ss of exon 5
TAATGTAGCAAGATGCCTAGGTATTCCAGAAAATAATGTTCGTGTCATTACAAGAAGGGTTGGTGGAGGTTTTGGTGGAAAGGCCTTGAGAGCCACAGCAgtaagtttttagttgtgtactatgcttttgaaaatatttct-tctttttttattagatttgttatcacttcttaaatatgactaattaacatagagtctag
||   |  | ||||| || |||||||| ||| | ||||| ||||| || |||||||||||||| || ||||||||||||||| || ||| ||| |  || || ||| | || |||     ||   || ||    | | ||  | |     ||  ||    |  ||        ||||| ||  ||   ||| | |  | | 
TACAATTTCGAGATGTCTTGGTATTCCTGAACACAATGTACGTGTGATCACAAGAAGGGTTGGAGGTGGTTTTGGTGGAAAGTCCATGAAAGCAATTGCTgtgagtatataattgatggttac-tttgtgtgtttgtgtccatatggccataagaggaccgccatttaaaggaaaatacgaggaaaacacacacacacaaa

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAATGTAGCAAGATGCCTAGGTATTCCAGAAAATAATGTTCGTGTCATTACAAGAAGGGTTGGTGGAGGTTTTGGTGGAAAGGCCTTGAGAGCCACAGCAgtaagtttttagttgtgtactatgcttttgaaaatatttcttctttttttattagatttgttatcacttcttaaatatgactaattaacatagagtctag

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA