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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttggttatgatggaaaaggcttgatttaaattttggtaatgtag

Basic information

species Glycine max
transcript GLYMA03G37170.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g15310.1 (Oryza sativa), 5'ss of exon 3
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgt--aatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttggttatgatggaaaaggcttgatttaaattttggtaatgtag------------
 | ||||| || || || || ||||| || |||||||| ||||| || |||||||| |||||||||||||| || || || || ||||| || || || ||  ||| | || |   ||| ||  |     |   |||| |  || || |  ||  |  |    |  ||| |  |||  |||| || ||  |||            
CTCGTGGAGCTTAAGAACGGCGAGACGTACAACGGGCACTTGGTGAACTGCGACACGTGGATGAACATCCACCTCCGGGAGGTTATTTGCACCTCAAAGgtgaaatctcgcatccccgacccact-----tcgcttgtagattt-tagtggggacaaaagattagtggcattgtttggatttggggaaaatagggagtagccatt

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G038606_T02 (Zea mays), 5'ss of exon 3
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttggttatgatgga--aaaggcttgatttaaattttggtaatgtag---------
 | ||||| ||||| ||||| |||||||| ||||||||| |||| ||||||||||| |||||||||||||||||  | || || ||||| || || || || |     ||  | |   || |   |    || ||      | || || |   | |||     ||  ||    | | | ||||||     |           
CTCGTGGAGCTGAAGAATGGTGAGACATACAACGGGCATCTGGTCAATTGCGACACGTGGATGAACATCCATCTTAGGGAGGTTATTTGCACCTCAAAGgtgaaaaatctggtgc---ccttgattcacattgtgaaaggctctagttagcaaaagattagttaagtgcactgtctgatttttgggtgaatctcttacccga

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G095114_T02 (Zea mays), 5'ss of exon 3
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttggttatgatggaaaaggcttgatttaaattttggtaatgtag
 | ||||| ||||| ||||| ||||| || ||||||||| |||| ||||||||||| |||||||||||||| ||  | || || ||||| || || || || |     ||     | | ||   |||| ||    ||||  |    | | ||||  |                                  
CTCGTGGAGCTGAAGAATGGTGAGACGTACAACGGGCATCTGGTCAATTgcgacacgtggatgaacatccaccttagggaggttatttgcacctcaaaggtgaaaaatct-----ggtgcc---cttgattcccattgtgataggttcttgttagca----------------------------------

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G095114_T01 (Zea mays), 5'ss of exon 3
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaa------tgttgcttttacgatcccttgc--ttgttttttgttgtcttgtaatttggtta-tg-atggaaaaggcttgatttaaattt--tggtaatgtag------------------------------------------------------------
 | ||||| ||||| ||||| ||||| || ||||||||| |||| ||||||||||| |||||||||||||| ||  | || || ||||| || || || || |      || |||  ||     || |||   | | || |||||  |     ||| | | | || || |       ||||  | ||| |  | ||||  |                                                              
CTCGTGGAGCTGAAGAATGGTGAGACGTACAACGGGCATCTGGTCAATTGCGACACGTGGATGAACATCCACCTTAGGGAGGTTATTTGCACCTCAAAGgtgaaaaatctggtgcccttgattcccattgtgataggttcttgttagcaaaagattagttaagtgcattgtttgattttgaggtgaatctgatagtaacattatggggtaccagttatttctgtctttcctgtagtaaaggtttataatggctggaattgcag

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 3
lower sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgcttttacgatcccttgct-----tgttttttgtt--------gtcttgtaatttggttatgatggaaaaggcttgatttaaattttggtaa-tgtag
 | ||||| || || ||||| |||||||| || ||||||||||| ||||| || || |||||||||||||||||||| |||||||| |||||||| || || || ||   ||| | ||   ||| |     | |  ||||||        ||  || ||||| ||   | ||  |      |  |||     ||| | | | |||
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttc-atatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctag

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv14s0060g02240.t01 (Vitis vinifera), 5'ss of exon 3
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgcttttacgatcccttgcttgtt-ttttgttgtcttgtaatttggttatgatggaaaaggcttgattt----aaattttggtaatgtag---------------
|||||||| |||||||||||||| || || || || ||||| || ||||| || ||||||||||||||||||||||| |||||||| || || || ||||||  ||   | || | |||  ||   | || ||||  | |  | || |||  | ||||   |||| | |    ||     | |  |||| |    |               
TTGGTGGAGCTGAAAAATGGGGAAACTTACAATGGTCATTTAGTGAATTGTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgtatggtatttctttcaatcaattatgtcttatttttctttaatttatttttataatgacttaaaatgatcatcttctgtgattcatggtcacaatgggaattaaaatgtag

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv07s0005g00230.t01 (Vitis vinifera), 5'ss of exon 5
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttggttatgatggaaaaggcttgatttaaattttggtaatgtag--------------
|||||||| || |||||||| || || || || |||||||||||||| || || || ||||||||||| ||||| || ||||| || ||||| || ||||||||      ||||     |  | ||||||| |||||  ||| | ||||   | |||  |     | ||| | |  |  ||  |  |  |               
TTGGTGGAGCTTAAAAATGGAGAAACTTACAATGGGCATTTGGTTAACTGTGATACTTGGATGAACATTCATCTTCGGGAAGTTATCTGTACCTCAAAAgtaatcaactctttaattgactgttcttgtttgttgtttacttcttatttacct-tgacagttcttgtttgctcttcaaattcatgtttcatccgatttaatgtag

upper sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 3
lower sequence: EFJ10085 (Selaginella moellendorffii), 5'ss of exon 2
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaa-tgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttggttatgatggaaaaggcttgatttaaattttggtaatgtag
         || || ||||| ||||| || || ||||||||||| |  ||||| |  ||||||||||||||||| |||||||| ||||| || || || |  | || || |||  |  ||| ||  ||  |  |  || |  | |                                               
--------GCTCAAGAATGGAGAGACTTACAATGGGCATTTGGTGAGCTGCGATAGCTGGATGAACATCCATCTACGAGAAGTTATTTGCACTTCCAAGGCGAGTGATgttttctccttcctttcttttctcatccttcttctctccag-------------------------------------------

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|298181980|gb|HO026155.1|HO026155
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATCTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|22541271|gb|BU091114.1|BU091114
EST:     GCGACACATGGAT-A-CATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|4306331|gb|AI443889.1|AI443889
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|298177576|gb|HO027243.1|HO027243
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|15285536|gb|BI469427.1|BI469427
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|20449577|gb|BQ253701.1|BQ253701
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|298188838|gb|HO035531.1|HO035531
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|298167205|gb|HO010644.1|HO010644
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|15287452|gb|BI471343.1|BI471343
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|20449634|gb|BQ253758.1|BQ253758
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|6227965|gb|AW156627.1|AW156627
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|298165378|gb|HO011427.1|HO011427
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|12773301|gb|BG238228.1|BG238228
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|298181583|gb|HO025758.1|HO025758
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|298169719|gb|HO021079.1|HO021079
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTCGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|298190031|gb|HO032152.1|HO032152
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|298180399|gb|HO025600.1|HO025600
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|298195412|gb|HO039243.1|HO039243
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|6724523|gb|AW308922.1|AW308922
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|208176841|gb|GD977690.1|GD977690
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
EST: gi|24206235|gb|BU965488.1|BU965488
EST:     GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA
genomic: GCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggtaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttggttatgatggaaaaggcttgatttaaattttggtaatgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT