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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAGAAAAGCTTGATGGTGATGCTGCTTTGAGTAAATTGTTCCGTGATATTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatccattctttgcttgctttgaaattcatgcgttttatttctgctaagtattcttagtttttgaaatcattaaaatttgccccattttcctttttttaattgcacgcttttttttag

Basic information

species Glycine max
transcript GLYMA11G02340.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G02340.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G105019_T01 (Zea mays), 5'ss of exon 9
AGAAGAAAAGCTTGATGGTGATGCTGCTTTGAGTAAATTGTTCCGTGATATTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatccattctttgcttgctttgaaattcatgcgttttatttctgctaagtattcttagtttttgaaatcattaaaatttgccccattttcctttttttaattgcacgcttttttttag
 |||||||| ||||||||||||||||| ||||  ||||| |||||||| || ||| |  |||| ||||| || ||| |||| || ||||  ||||| |||||| |      ||  || ||     |   ||| | ||  |||       || || | |  ||  | | |  | |||   |   ||||||  || | |                           
GGAAGAAAAACTTGATGGTGATGCTGCATTGAACAAATTCTTCCGTGACATCTACAAGGATGCTGATGAAGATATGCGGAGGGCCATGATGAAGTCATTCgtacg----tgatgtttggcccagct---aatac-tggatttgga----gccaactgtattttatgtctatactcacgtatccttgcccgtttctgcag-------------------------
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|208285774|gb|GE087372.1|GE087372
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|193397356|gb|FK361038.1|FK361038
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|193593242|gb|FK548896.1|FK548896
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|208092434|gb|GD887511.1|GD887511
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAAGTGCTATCAACTGATTGGAAAGAAGTGGGATC
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACA-GTGCTATCAACTGATTGGAAAGAAGTGGGATC
EST: gi|208109520|gb|GD906664.1|GD906664
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGT
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGT
EST: gi|193476421|gb|FK443020.1|FK443020
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|193600872|gb|FK551193.1|FK551193
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|208053186|gb|GD853519.1|GD853519
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|208303217|gb|GE101038.1|GE101038
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|207733771|gb|GD709635.1|GD709635
EST:     AGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: AGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|193350535|gb|FK315397.1|FK315397
EST:     AGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGGTCA
genomic: AGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|193447898|gb|FK410985.1|FK410985
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAA
EST: gi|207793139|gb|GD766025.1|GD766025
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|208106192|gb|GD905133.1|GD905133
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAA
EST: gi|207707453|gb|GD689261.1|GD689261
EST:     AGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTC-AATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: AGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|193485581|gb|FK448758.1|FK448758
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|193544466|gb|FK500677.1|FK500677
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAA
EST: gi|208333590|gb|GE131983.1|GE131983
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|208247520|gb|GE045818.1|GE045818
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGA
EST: gi|193390690|gb|FK355938.1|FK355938
EST:     AATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGGTCA
genomic: AATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|207845112|gb|GD817565.1|GD817565
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|193305228|gb|FK273189.1|FK273189
EST:     AGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGGTCA
genomic: AGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|193343116|gb|FK305710.1|FK305710
EST:     AGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGGTCA
genomic: AGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|208314468|gb|GE111816.1|GE111816
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTG
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTG
EST: gi|208232523|gb|GE032276.1|GE032276
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAA
EST: gi|193694906|gb|FK632976.1|FK632976
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|208108188|gb|GD902504.1|GD902504
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAA
EST: gi|208080589|gb|GD873235.1|GD873235
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
EST: gi|208339388|gb|GE134432.1|GE134432
EST:     TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTC                         TTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA
genomic: TTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatc ... ttttttttagTTGGAGTCAAATGGAACAGTGCTATCAACTGATTGGAAAGAAGTGGGATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAGAAAAGCTTGATGGTGATGCTGCTTTGAGTAAATTGTTCCGTGATATTTACCAAAATGCAGATGAGGACATGAGGAGAGCAATGAGCAAGTCTTTCgtaagatatccattctttgcttgctttgaaattcatgcgttttatttctgctaagtattcttagtttttgaaatcattaaaatttgccccattttcctttttttaattgcacgcttttttttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG