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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAAGAGAAAAAAATGAATGCCACCTACATTATCAGTATTGCAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttggaatcactactaatgttgcttgcgcttttctttgatatgcaccaaaattattactattactattattaactaaacttctgaaacattcagtt...

Basic information

species Glycine max
transcript GLYMA03G22450.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G22450.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv07s0141g00720.t01 (Vitis vinifera), 5'ss of exon 1
ACCAAGAGAAAAAAATGAATGCCACCTACATTATCAGTATTGCAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAGgta-----atttggaatcactactaatgttgcttgcgcttttctttgatatgcaccaaaattattactattactattattaactaaacttctgaaacattcagtt
              |||||||||| ||| || |||||||||||||| || ||||||||||| |||||  ||||||||||||||||||| ||||||     || ||| || |  ||  |  ||   |       | | |   |     | | |  | | | | ||  |  ||  ||  || |  ||  | |       
--------------ATGAATGCCAGCTATATCATCAGTATTGCAAGGAAACTTGGATGTTCAATATTTTTGCTTCCTGAAGACATCACAGAGgtatgtatatatgggattatcaccgaacttttatattaaagtgtatagaaaatttctacacaactgc-agtatcaccatccacataaatggtggtataaga----
















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|207762220|gb|GD731583.1|GD731583
EST:     CAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAG                         GTGAATACAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTG
genomic: CAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttgga ... acaatttcagGTGAAT-CAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTG
EST: gi|207788959|gb|GD760307.1|GD760307
EST:     CTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAG                         GTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
genomic: CTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttgga ... acaatttcagGTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
EST: gi|208084492|gb|GD879710.1|GD879710
EST:     AAAGCTTGGTTATTGTTTCTATATTCCTGCTTCCTGAAGACATCACTGAG                         GTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
genomic: AAAGCTTGG--A-TG-TTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttgga ... acaatttcagGTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
EST: gi|16348640|gb|BI974235.1|BI974235
EST:     CAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAG                         GTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
genomic: CAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttgga ... acaatttcagGTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
EST: gi|9258812|gb|BE346959.1|BE346959
EST:     CAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAG                         GTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
genomic: CAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttgga ... acaatttcagGTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
EST: gi|193491129|gb|FK456002.1|FK456002
EST:     GAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAG                         GTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
genomic: GAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttgga ... acaatttcagGTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
EST: gi|193634058|gb|FK581138.1|FK581138
EST:     CAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAG                         GTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
genomic: CAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttgga ... acaatttcagGTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
EST: gi|193687070|gb|FK630367.1|FK630367
EST:     TTCTATATTCCTGCTTCCTGAAGACATCACTGAG                         GTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC
genomic: TTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttgga ... acaatttcagGTGAATCAAAAAATGATCCTTACACTAACGGCTAGTATAATGTCTTGGTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCAAGAGAAAAAAATGAATGCCACCTACATTATCAGTATTGCAAGAAAGCTTGGATGTTCTATATTCCTGCTTCCTGAAGACATCACTGAGgtaatttggaatcactactaatgttgcttgcgcttttctttgatatgcaccaaaattattactattactattattaactaaacttctgaaacattcagtt

- - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA