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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctatcgtatgcatatttttctttcctttcttttcctctctgagtgttgaataacatatatatattagtgtctactaatctttttccatctggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTGAATCTGGTGGGAGTGACCATTATGATGACCTAGCCAGGGCATTAAATAG

Basic information

species Glycine max
transcript GLYMA16G28970.1
intron # 1
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|120496157|gb|EH224324.1|EH224324
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|23728379|gb|BU762241.1|BU762241
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|17518686|gb|BM187728.1|BM187728
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|17400259|gb|BM177033.1|BM177033
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|23064532|gb|BU579305.1|BU579305
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATT
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATT
EST: gi|23052682|gb|BU577174.1|BU577174
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         G----G--CCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|17964443|gb|BM271178.1|BM271178
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|17023052|gb|BM094086.1|BM094086
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|17519077|gb|BM188119.1|BM188119
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|151410302|gb|EV280117.1|EV280117
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|7795882|gb|AW781279.1|AW781279
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATNTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTNTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|15201067|gb|BI424675.1|BI424675
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTACGCAATGCTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|15203586|gb|BI426354.1|BI426354
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|23728250|gb|BU762173.1|BU762173
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGCAATGCTATATTGCATGGCATTGACTTTGACAT-G
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|192324884|gb|FK016085.1|FK016085
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|120496680|gb|EH224847.1|EH224847
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|120496818|gb|EH224985.1|EH224985
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|15204410|gb|BI427178.1|BI427178
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|13480643|gb|BG509986.1|BG509986
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|15000522|gb|BI321336.1|BI321336
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG
EST: gi|23064064|gb|BU578837.1|BU578837
EST:     CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCG                         GATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGATTTTG
genomic: CACTCAACTTGCAAACTACCTCTGGCAGAATTTCCTTGGAGGTCAAACCGgtaagagtaa ... ggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaataacatatatatattagtgtctactaatctttttccatctggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTGAATCTGGTGGGAGTGACCATTATGATGACCTAGCCAGGGCATTAAATAG
                          tactaat  putative branch site (score: 1)
                                tctttttccatctg  CT-rich tract
     taacatatatatatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctatcgtatgcatatttttctttcctttcttttcctctctgagtgttgaataacatatatatattagtgtctactaatctttttccatctggtaattcagGATCAGGGCCATTAGGTAATGTTATATTGGATGGCATTGACTTTGACATTGAATCTGGTGGGAGTGACCATTATGATGACCTAGCCAGGGCATTAAATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - -gtatgca
- - - - - - - - - - - - - - - - tcctctc
- - - - - - - - - - - - - - - - - - - -tgagtgt
- - - - - - - - - - - - - - - - - - - - - - - -gaataac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtcta