Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatagtttagagtcaggagcttttttatgaacatgccgagtttttttttttcttctttttttaacttttccatgtttcctcactttctatactgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAAGTAGATCT

Basic information

species Glycine max
transcript GLYMA07G15960.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G15960.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0007g00530.t01 (Vitis vinifera), 3'ss of exon 5
aatagtttagagtcaggagctttttta--tgaacatgccgagtttttttttttcttctttttt--taactttt------ccatgtttcctcactttctata-ctgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAAGTAGATCT
            | |||||   |||||  ||||  |  | | |||| | |    |  ||   |  ||| || |      |||  |  | |    ||||||  | ||  ||||||||| ||||| ||||| | ||| || ||  | |||||| ||||||| || |||||||||||||||||  |||| ||||| || ||||| | |||   |
-----------atgaggagtgattttaaatgaatttatcaatttttatctacattgtttaactagtaagttgtaactagccaaatgacatgtacttctatggcggaaacagGGCTGGAGGCTTACAAGATAGAGAAGGTGGCATCCGGGAATTACTTGTTGGCAAGGATGATGAGCTTCTTAAGACAGAAACAAGGACCATTACTAGGAAT
















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|4313549|gb|AI460668.1|AI460668
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|8285026|gb|BE022585.1|BE022585
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|192323796|gb|FK015607.1|FK015607
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|208333218|gb|GE127453.1|GE127453
EST:     TGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: TGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|193519195|gb|FK474960.1|FK474960
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAA
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAA
EST: gi|6095017|gb|AW119684.1|AW119684
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|31473809|gb|CD415837.1|CD415837
EST:     AAGGCTGAGCTATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|208080716|gb|GD873278.1|GD873278
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|193644244|gb|FK590339.1|FK590339
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTAGTAA
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTT-GTA-
EST: gi|26269011|gb|CA820074.1|CA820074
EST:     TACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: TACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|120530205|gb|EH258339.1|EH258339
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTA
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTA
EST: gi|209722162|gb|BW672387.1|BW672387
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|209711638|gb|BW671349.1|BW671349
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|22932949|gb|BU550088.1|BU550088
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|22522578|gb|BU081389.1|BU081389
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|209703531|gb|BW678273.1|BW678273
EST:     CTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: CTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|192305319|gb|FG994015.1|FG994015
EST:     AAGGCTGAGCAATATTTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTTTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|209710152|gb|BW658901.1|BW658901
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|31475468|gb|CD417496.1|CD417496
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|15288058|gb|BI471949.1|BI471949
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAA                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTT
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTT
EST: gi|13563514|gb|BG551734.1|BG551734
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|18719000|gb|BM523126.1|BM523126
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|193695809|gb|FK636059.1|FK636059
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|15204650|gb|BI427418.1|BI427418
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|15204560|gb|BI427328.1|BI427328
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|193385161|gb|FK352315.1|FK352315
EST:     AGGCTGAGCAATATCTGGCTGATTCCGGCATTCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AGGCTGAGCAATATCTGGCTGATTCCGGCA-TCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|58016121|gb|CX702863.1|CX702863
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|192333007|gb|FK024656.1|FK024656
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|193349571|gb|FK316127.1|FK316127
EST:     TTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: TTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|209725254|gb|BW672729.1|BW672729
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGA
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGA
EST: gi|214006672|gb|DB987554.1|DB987554
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|209703530|gb|BW678272.1|BW678272
EST:     GAGCATTATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: GAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|209710151|gb|BW658900.1|BW658900
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|209706219|gb|BW680910.1|BW680910
EST:     CATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: CATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
EST: gi|5175554|gb|AI759887.1|AI759887
EST:     AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAG                         GGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG
genomic: AAGGCTGAGCAATATCTGGCTGATTCCGGCATCCCATATACAATTATAAGgtacaccaat ... actgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttcttctttttttaacttttccatgtttcctcactttctatactgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAAGTAGATCT
                               tcctcac  putative branch site (score: 2)
       ttctttttttaacttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatagtttagagtcaggagcttttttatgaacatgccgagtttttttttttcttctttttttaacttttccatgtttcctcactttctatactgagccagGGCTGGTGGCTTGCAAGACAAAGATGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAAGTAGATCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - acatgcc