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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtatcaatcacaaatgctgctattagcactgactcgatctttttcttattttcaaaaatgattaaactccattttggtggtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGGTAAATTTTTCTTTTAAGAATTCGCAGCAGATGGAGTTGCCTTAATGTTC

Basic information

species Glycine max
transcript GLYMA03G31340.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G31340.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0151g00290.t01 (Vitis vinifera), 3'ss of exon 4
gtagtatcaatcacaaatgctgctattagcactgactcgatctttttcttattttcaaaaatgattaaactccattttggtggtaaa----tgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGGTAAATTTTTCTTTTAAGAATTCGCAGCAGATGGAGTTGCCTTAATGTTC
|||  || ||||       ||  | |     ||| |   ||  |  ||  |  |  | | ||    | | ||  |  | ||  |  |    |||||||||||||||||||||||| || | |||||| || || ||||| ||||||                                                  
gta--attaatcttt--cacttttgtagattctgtca-aatgctactcacaaatgtacagattcacagattcattactagtttttcaatggtgcagGTGATCTTCACTGGAAAATGGTCTTTGTTTACATTCACAGAACAGGCCAG--------------------------------------------------
















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|193689324|gb|FK630457.1|FK630457
EST:     CCTAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|207819394|gb|GD791190.1|GD791190
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAAT
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAAT
EST: gi|193680688|gb|FK621164.1|FK621164
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|207787136|gb|GD758717.1|GD758717
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|193484819|gb|FK452071.1|FK452071
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGG
EST: gi|208129385|gb|GD930981.1|GD930981
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTAGGAAAAATAAGTGTCTGTTTATATA
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACT-GGAAAA-TA-GTGTCTGTTTATATA
EST: gi|193567918|gb|FK526509.1|FK526509
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACT
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACT
EST: gi|193639885|gb|FK593994.1|FK593994
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|193656719|gb|FK603751.1|FK603751
EST:     CAAGAGCTTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATTTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CAAGAGCT-ACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|193405014|gb|FK373385.1|FK373385
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|193530081|gb|FK486140.1|FK486140
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|193530006|gb|FK487437.1|FK487437
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAA-G                         GTGATCTTCACT
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACT
EST: gi|207821854|gb|GD794293.1|GD794293
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAA-TAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|208151452|gb|GD950377.1|GD950377
EST:     TCAAGAGCTACTTGCTAAGGGCAGTGAATTACTTAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|208328005|gb|GE121197.1|GE121197
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|208266065|gb|GE063574.1|GE063574
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|208220718|gb|GE016748.1|GE016748
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|208136048|gb|GD935857.1|GD935857
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAA-TAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|207776619|gb|GD748681.1|GD748681
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAA-G                         GTGATCTTCACTGGAAAAT-GTGTCTGTTTANATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|207796418|gb|GD769754.1|GD769754
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCC
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCC
EST: gi|208054217|gb|GD854410.1|GD854410
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGC-AGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|208057371|gb|GD849912.1|GD849912
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAA-TAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|208293996|gb|GE090791.1|GE090791
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|207786914|gb|GD755821.1|GD755821
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
EST: gi|193390807|gb|FK355971.1|FK355971
EST:     CCAAGAGCTACTTGCTAAGGGCGGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATA
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATA
EST: gi|193373899|gb|FK339817.1|FK339817
EST:     CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAG                         GTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG
genomic: CCAAGAGCTACTTGCTAAGGGCAGTGAATTACTCAAGCGCACCCGTAAAGgtagtatcaa ... gtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgatctttttcttattttcaaaaatgattaaactccattttggtggtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGGTAAATTTTTCTTTTAAGAATTCGCAGCAGATGGAGTTGCCTTAATGTTC
     tttttcttattttcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtatcaatcacaaatgctgctattagcactgactcgatctttttcttattttcaaaaatgattaaactccattttggtggtaaatgcagGTGATCTTCACTGGAAAATAGTGTCTGTTTATATACATAGAACTGGCCAGGTAAATTTTTCTTTTAAGAATTCGCAGCAGATGGAGTTGCCTTAATGTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA