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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttcatatgtcttttctattattttcctccacagcttgggggaacaaaattttgataatgtgctttcttggagaatcttatgttctctgcattttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG

Basic information

species Glycine max
transcript GLYMA14G36280.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G36280.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 5
--gttcatatgtct-tttctattattttcctccacagcttgggggaacaaaattttgataatgtgctttcttggagaatcttatgttctctgcattttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG
  || | ||  | | | |  | || ||     || |  ||  |    |     |   | || |||   |  |       |      | ||| | | |   |||| ||||||||| |  |||| || || ||| | |||||||| |||||||||||  |||||||||| ||||||||||| |||||  | |||||||| |||||
ttgtacttaaatttatctagaatacttattctcaaaattttagttttcttt-ctccaaaaaggtggcattctaacttgacaaccaatttctacctct--gcagTGAATGTGCAACCTCTATCAGGGTCACCTGCCAACTTCCATGTTTACACTGCCCTATTGAAACCACATGAGAGAATCATGGCTTTGGATCTTCCTCATGG

upper sequence: GLYMA14G36280.2 (Glycine max), 3'ss of exon 5
lower sequence: AT5G26780.1 (Arabidopsis thaliana), 3'ss of exon 5
gttcatatgtcttttctattattttcctccacagcttgggggaacaaaattttgataatgtgctttcttggagaatcttatgttctctgcattttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG
     | ||    ||  || | |||| |    |  |  |   ||  ||||  |  ||     |    ||    |||         | | |||||||  |||||||||||| || ||||| ||||| ||  |||| ||||||||||||||||| || ||||| |||||||| ||||| |||||||||||| | || |||||
----gtgtgctaattacat-actttcgttgtgaattgtgattaaagaaatcctactag-aaaccaaatttactaatggagacacttgttcattttg-tagTCAATGTGCAGTCTTTATCAGGATCACCAGCTAATTTCCAAGTTTACACTGCATTGTTGAAGCCTCATGAAAGAATCATGGCACTTGATTTACCTCATGG

upper sequence: GLYMA14G36280.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 5
---gttcatatgtcttttctattattttcctccacagcttgggggaacaaaattttgataatgtgctttcttggagaatcttatgttctctgcattttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG
   ||| | ||   || |||||  || ||| |  |  | |   |  ||| | || |||  |    |||| ||  |   |  | | || | |   ||||| ||||||||||||| |||||||||||||||||| | ||||| |||| |||||| || ||||| ||||||||||||||||| ||||||||||||||||| |||||
tttgtttaaatcatttatctat--ttgtccgctcccacgtaaagagacatatttctgaacaccaactttatttaaagcttatttatt-tattttttttggcagTCAATGTGCAGTCATTATCTGGATCCCCTGCCAACTTTCAAGCTTACACGGCATTATTAAAACCTCATGAGAGAATCATGGCACTTGATCTTCCTCATGG

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|151396057|gb|EV265934.1|EV265934
EST:     TCAGAAGCGTGCACTTGAAGCTTTTCAGCTGGATCCAGCAAAATGGGGAG                         TCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG
genomic: TCAGAAGCGTGCACTTGAAGCTTTTCAGCTGGATCCAGCAAAATGGGGAGgttagtaagc ... attttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG
EST: gi|298187285|gb|HO034434.1|HO034434
EST:     TCAGAAGCGTGCACTTGAAGCTTTTCAGCTGGATCCAGCAAAATGGGGAG                         TCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG
genomic: TCAGAAGCGTGCACTTGAAGCTTTTCAGCTGGATCCAGCAAAATGGGGAGgttagtaagc ... attttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG
EST: gi|27426205|gb|CA937725.1|CA937725
EST:     TCAGAAGCGTGCACTTGAAGCTTTTCAGCTGGATCCAGCAAAATGGGGAG                         TCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG
genomic: TCAGAAGCGTGCACTTGAAGCTTTTCAGCTGGATCCAGCAAAATGGGGAGgttagtaagc ... attttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG
EST: gi|209724640|gb|BW651425.1|BW651425
EST:     TCAGAAGCGTGCACTTGAAGCTTTTCAGCTGGATCCAGCAAAATGGGGAG                         TCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG
genomic: TCAGAAGCGTGCACTTGAAGCTTTTCAGCTGGATCCAGCAAAATGGGGAGgttagtaagc ... attttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaattttgataatgtgctttcttggagaatcttatgttctctgcattttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG
    ttttgat  putative branch site (score: 4)
     tttgataat  TA-rich tract