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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTTAATGTGCTGAATGAATATCAACAGATTCAATCTTTTTCTGCATTCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaacacttgtcactatttctagacattcctttactcaaaaaatatatttttgaatatagatatgtatttccttctttttccccctttgaaaggc...

Basic information

species Glycine max
transcript GLYMA07G01720.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01720.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv09s0002g03200.t01 (Vitis vinifera), 5'ss of exon 8
ATCTTAATGTGCTGAATGAATATCAACAGATTCAATCTTTTTCTGCATTCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaacacttgtcactatttctagacattcctttactcaaaaaatatatttttgaatatagatatgtatttcc-ttctttttccccctttgaaaggc--
|||||  |||  ||||||| ||||||||| |||||||||| ||||||||||||| ||||||||| ||||| ||| | |||||||| ||||| |||||||||||    |||     |     |  |   |      |   ||     || |||||    |     | |  ||||   || | | |       |||   |   
ATCTTCGTGTCTTGAATGAGTATCAACAGCTTCAATCTTTCTCTGCATTCAACAATATCTTCAACAATACTGGAATTTTTGGCATTTATGCTAGCACTgtaag---gcaccccctaaagccttaaattaccttgatcaacatggcttacattttgttgttctactgtccatttaggttgtgtgttgaatggtgatttgttt

upper sequence: GLYMA07G01720.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv10s0003g03230.t01 (Vitis vinifera), 5'ss of exon 7
ATCTTAATGTGCTGAATGAATATCAACAGATTCAATCTTTTTCTGCATTCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaacacttgtcactatttctagacattcctttactcaaaaaatatatttttgaatatagatatgtatttcc-ttctttttccccctttgaaaggc--
|||||  |||  ||||||| ||||||||  |||||||||| ||||||||||||| ||||||||| |||||  || | |||||||| ||||| |||||||||||  | | | |    |  ||     || ||  |  |||      | || || |||  |     | |  ||||   || | | |       |||   |   
ATCTTCGTGTCTTGAATGAGTATCAACAACTTCAATCTTTCTCTGCATTCAACAATATCTTCAACAATACTAGAATTTTTGGCATTTATGCTAGCACTgtaaggcaccccctaaagcc-ttaaattaccttgatcaacttggcttacattttgttg--ttctactgtccatttaggttgtgtgttgaatggtgatttgttt
















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|193629202|gb|FK578150.1|FK578150
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATTTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
EST: gi|193407763|gb|FK372341.1|FK372341
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTAGATATAGCAGCCAAAGAACTAAT
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTT-GATATAGCAGCCAAAGAACTAAT
EST: gi|193466023|gb|FK429764.1|FK429764
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATTTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
EST: gi|193626188|gb|FK573031.1|FK573031
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
EST: gi|192307375|gb|FK001963.1|FK001963
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
EST: gi|193649556|gb|FK596693.1|FK596693
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
EST: gi|193680509|gb|FK624401.1|FK624401
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATTTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
EST: gi|192307855|gb|FG999334.1|FG999334
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
EST: gi|208148512|gb|GD946348.1|GD946348
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
EST: gi|207688245|gb|GD672584.1|GD672584
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
EST: gi|193640001|gb|FK590146.1|FK590146
EST:     TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATTTATGCAAGCACT                         AGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA
genomic: TCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaac ... gtgcatgtagAGCCCTGATTTTGTGCCAAAAACTGTTGATATAGCAGCCAAAGAACTAATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCTTAATGTGCTGAATGAATATCAACAGATTCAATCTTTTTCTGCATTCAACAGTATCTTCAATAATACAGGACTGTTTGGCATCTATGCAAGCACTgtaagcaaacacttgtcactatttctagacattcctttactcaaaaaatatatttttgaatatagatatgtatttccttctttttccccctttgaaaggc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccccc