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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaggtttgttatttctagtttacgtctgtttttgttcaaaaggaagttgatgcagttttatttttctcatcccctattgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTATCTGCAACATGAGAAAGTGCAACACACCCAAACC

Basic information

species Glycine max
transcript GLYMA18G00920.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G00920.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G67325.2 (Arabidopsis thaliana), 3'ss of exon 7
----------gtacaggtttgttatttctagtttacgtctgtttttgttcaaaaggaagt-----tgatgcagttttatttttctc---atcccctattgcga------atagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTATCTGCAACATGAGAAAGTGCAACACACCCAAACC
          | | || |  |   ||||   ||   |    | |  | |  ||||   |      |  |  |||  || |   ||    ||   || ||| |       | |||| |||| || || ||||| ||||||||||| || ||||| ||||| || || |||||||||||| | || |||||||| ||||||||||| || || ||
gtatgtgctagaagagttaggccttttcccattctagaacatgtcagctgtaaagctggcctttattttatagtgatagtcaacttgatatattctgttgtgttcttttacagATTCAACTCGCGATAATGATTGGACATGTCCGAATTGTGGTAATGTAAACTTCTCATTCAGAACTGTATGTAACATGAGGAAGTGCAACACTCCAAAGCC

upper sequence: GLYMA18G00920.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 6
-----------gtacaggtttgttatttc-tagtttacg--tctgtt-tttgttcaaaaggaagttgatgcagttttatttttctcatcccctattgcgaat--agATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTATCTGCAACATGAGAAAGTGCAACACACCCAAACC
             |||  |||| |||||  ||  ||  |   |  || ||||     | || |  |  |  |   | | | ||     |   || ||    |  ||||||||| ||||| ||||||||||| ||||| |||||||| |||||||| || || || |||||| | || |||||||| |||||||| ||||| |||||
gtgcaggcttgtcacacctttgctattttataaattgtgagccaattatttggcatcatggcaaattctttatcctgactgtttcatccttttaatgaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACTTCTCTTTTAGAACTGTTTGTAACATGAGGAAGTGCAATACACCAAAACC
















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|192312177|gb|FK005662.1|FK005662
EST:     GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|254326113|gb|GR840705.1|GR840705
EST:     GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|208241879|gb|GE041073.1|GE041073
EST:     GGTGCTAGGCCAGGA-TTTTCCATGATGACAAGTCACAG-AAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCTAAT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTC-AAT
EST: gi|254326112|gb|GR840704.1|GR840704
EST:     GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|193340774|gb|FK308731.1|FK308731
EST:     GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|193613910|gb|FK562694.1|FK562694
EST:     AATGGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: AATGGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|9440085|gb|BE440596.1|BE440596
EST:     GGTGCTANGCCAGGATTTTTCCATGATGACTAGTCACAGGAAAAAG                         ATGCCACACGTGACAATGACTGGACATGT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGT
EST: gi|193342494|gb|FK306110.1|FK306110
EST:     GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|193409098|gb|FK373228.1|FK373228
EST:     GGTGCTAGGCCAGGATTTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTT-CCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|193420265|gb|FK388245.1|FK388245
EST:     GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|193429121|gb|FK393215.1|FK393215
EST:     GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|58022050|gb|CX708791.1|CX708791
EST:     GGTGCTAGCCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|4289526|gb|AI441488.1|AI441488
EST:     AATGGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: AATGGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|207687590|gb|GD668947.1|GD668947
EST:     GGTGCTAGGCCAGGATTTTTTCCATGATGACAAGTCACAGAAAAAAG                         AATGCAACAACGTGACAATAGACTGGAC
genomic: GGTGCTAGGCCAGGATTTTT-CCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagA-TGCAACA-CGTGACAAT-GACTGGAC
EST: gi|192312176|gb|FK005661.1|FK005661
EST:     GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|193357235|gb|FK321551.1|FK321551
EST:     GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAA-G                         ATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAGgtacaggttt ... ttgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttcaaaaggaagttgatgcagttttatttttctcatcccctattgcgaatagATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTATCTGCAACATGAGAAAGTGCAACACACCCAAACC
             agttgat  putative branch site (score: 5)
                        ttttatttttctcatc  putative PPT
                        ttttatttttctcat  TA-rich tract