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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCTTGGTAACTCTAACCTATCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttctaactttgctttatattttttccccaatattgtgactttaagtctgttaaatgtggctttatgatgcattgatacaatatgtgtatcata...

Basic information

species Glycine max
transcript GLYMA02G44250.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G44250.2 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G121820_T01 (Zea mays), 5'ss of exon 2
GGATCTTGGTAACTCTAACCTATCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttctaactttgctttatattttttccccaatatt-gtgactttaagtctg---ttaaatgtggctttatgatgcattgatacaatatgtgtatcata
 ||||||||||| |  ||| ||||||| ||| |||| ||||| |||||||| ||||||||||| ||||||||||| ||| |    |       | ||| | ||      | || |  |    ||||| |   |||||| |  ||  |   ||| |||    |    |  | | || 
AGATCTTGGTAATTTGAACTTATCTGGTCATCTGGTGCCTGAGCTTGGGAAACTGGAGCATCTTCAGTATCTgtaagttcttaccccaaatggtttatgtcttggtagttgttagcaataggaagtcggaacttaaat-tcactcaac--tgctttgggcaacagggcatgtaat-

upper sequence: GLYMA02G44250.2 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM5G815009_T01 (Zea mays), 5'ss of exon 2
GGATCTTGGTAACTCTAACCTATCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttctaactt-tgctttatattttttccccaatattgtgactttaagtctgttaaatgtggctttatgatgcattgatacaatatgtgtatcata
 ||||||||||| |  ||| ||||||| ||| |||| ||||| ||||||||  |||||||||| ||||| ||||| ||| |    |   || ||||||| ||        |      |    ||||| |          |  | |      || |     | |||| ||||  
AGATCTTGGTAATTTGAACTTATCTGGTCATCTGGTGCCTGAGCTTGGGAAATTGGAGCATCTGCAGTACCTgtaagttcttacccaaatggtttatatcttggtagttgttagccaataggaagtcggaccttacactcgctgtttcttttttaactgctttgtgcatcag-

upper sequence: GLYMA02G44250.2 (Glycine max), 5'ss of exon 2
lower sequence: AT3G43740.1 (Arabidopsis thaliana), 5'ss of exon 2
GGATCTTGGTAACTCTAACCTATCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc-taact---ttgctttatattttttccccaatattgtgactttaagtctgttaaatgtggctttatgatgcattgatacaatatgtgtatcata
|||| | || || || ||| ||||||||||| | |||||||||||||||||||| || ||| |||| ||||||||||   || | |||   |||| || |  || |     || |||   | | | ||||    | ||     |||    || | | ||| |              
GGATTTGGGGAATTCAAACTTATCTGGACATCTAGTACCTGAACTTGGGAAGCTTGAACATTTACAATATCTgtatggaatcatcactcttttgccttttgattatctgaaaacatttacattatcagtcacacatataacattttgctttg-agtcatatag-------------

upper sequence: GLYMA02G44250.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv06s0009g01210.t01 (Vitis vinifera), 5'ss of exon 2
GGATCTTGGTAACTCTAACCTATCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttctaactttgctttatattttttccccaatattgtgactt-taagtctgttaaatgtggctttatgatgcattgatacaatatgtgtatcata---
|||  | ||||| || ||||| ||||| ||| ||||||||||||||||||||||  || |||| |||||||||||||||||     ||  || | || | |      |  ||||||| |  | ||| | |||      | ||| |  |||| | ||  |   | ||| | | |   
GGACTTGGGTAATTCAAACCTCTCTGGTCATCTGGTACCTGAACTTGGGAAGCTCAAGTATCTGCAGTATCTgtatgtttttctctttgactgtttaatgtagg---aggattgtgaatccttagttttttattctatggtttgtcttgcaataatctatggtatgt-tgagaggg

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|298181464|gb|HO022903.1|HO022903
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|6719571|gb|AW307218.1|AW307218
EST:     GGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: GGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|192301521|gb|FG994761.1|FG994761
EST:     GGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: GGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|14259491|gb|BG882399.1|BG882399
EST:     TGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|208225795|gb|GE021020.1|GE021020
EST:     GGACATTTGGTTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCAGAACTTGGAAA
genomic: GGACATTTGG-TACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|298172702|gb|HO019742.1|HO019742
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|6668064|gb|AW279515.1|AW279515
EST:     TCTGGACATTTGGTACCTGAACTTGNGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|209710099|gb|BW653554.1|BW653554
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAG
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|9564436|gb|BE473945.1|BE473945
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|120530833|gb|EH258966.1|EH258966
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|10708996|gb|BF008781.1|BF008781
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTGCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|27426228|gb|CA937748.1|CA937748
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCCTC-GGAACTTGGAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCC-TCCGGAACTTGGAA
EST: gi|7925081|gb|AW831107.1|AW831107
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAGACAACATTCAAGGAACTATGCCTCCCGAAACT-GGAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAA-CTTGGAA
EST: gi|120531133|gb|EH259266.1|EH259266
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAACTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAGACTACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|26059546|gb|CA802460.1|CA802460
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|120530964|gb|EH259097.1|EH259097
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|58020483|gb|CX707225.1|CX707225
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|298168193|gb|HO013456.1|HO013456
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGGAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|23726214|gb|BU761091.1|BU761091
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAG
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|21889419|gb|BQ742632.1|BQ742632
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|151394690|gb|EV264561.1|EV264561
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|16349170|gb|BI974765.1|BI974765
EST:     TCTGGACATTTGGTACCTGAACTTGNGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
EST: gi|120530517|gb|EH258650.1|EH258650
EST:     TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCT                         TGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA
genomic: TCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttc ... ttggatgtagTGAGTTGTACAAAAACAACATTCAAGGAACTATTCCTCCGGAACTTGGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATCTTGGTAACTCTAACCTATCTGGACATTTGGTACCTGAACTTGGGAAGCTGGAGCATCTACAGTATCTgtatgttttctaactttgctttatattttttccccaatattgtgactttaagtctgttaaatgtggctttatgatgcattgatacaatatgtgtatcata

- - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA