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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttccttctcccgtttctcctctctttcttttcattctcaaatcacaatgcttggaattgtgtattcatttgatatgagtttgtttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTAAGAAAAGTTCTCAAGGAAATTCACTCACTTTTTGTCATGTTTCATGGAT

Basic information

species Glycine max
transcript GLYMA05G34400.1
intron # 2
splice site 3'
intron type U2

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|298197699|gb|HO045178.1|HO045178
EST:     GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATG                         GTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
genomic: GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATGgttccttctc ... ttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
EST: gi|6482462|gb|AW201719.1|AW201719
EST:     GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATG                         GTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
genomic: GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATGgttccttctc ... ttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
EST: gi|298178758|gb|HO024493.1|HO024493
EST:     GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATG                         GTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
genomic: GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATGgttccttctc ... ttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
EST: gi|298196439|gb|HO041182.1|HO041182
EST:     GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATG                         GTTGCCGACAAAAGCAATGACTCAGAACCTATACGGAGAGTTGATGCATTA
genomic: GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATGgttccttctc ... ttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
EST: gi|18735130|gb|BM528581.1|BM528581
EST:     GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATG                         GTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
genomic: GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATGgttccttctc ... ttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
EST: gi|298194957|gb|HO043429.1|HO043429
EST:     GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGCCATG                         GTTGCCGACAAAAGCAATGATTCAGAACCTACATGGAGAGTTGATGCATTA
genomic: GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATGgttccttctc ... ttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA
EST: gi|298185750|gb|HO028061.1|HO028061
EST:     GACATTCTCATGTTTTCTACGAGGCCGAACCAGATATCTGGATAGTCATG                         GTTGCCGACAAAAGCAATAATTCAGAACCTATATGGAGAGTTGATGCATTA
genomic: GACATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATGgttccttctc ... ttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatcacaatgcttggaattgtgtattcatttgatatgagtttgtttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTAAGAAAAGTTCTCAAGGAAATTCACTCACTTTTTGTCATGTTTCATGGAT
                            atttgat  putative branch site (score: 5)
                                        tttgtttcctt  putative PPT
                       tattcatttgatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttccttctcccgtttctcctctctttcttttcattctcaaatcacaatgcttggaattgtgtattcatttgatatgagtttgtttccttgtagGTTGCCGACAAAAGCAATGATTCAGAACCTATATGGAGAGTTGATGCATTAAGAAAAGTTCTCAAGGAAATTCACTCACTTTTTGTCATGTTTCATGGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA