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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatggtttttttttctatgcatatctcaaatcaaagttgtattttctcaagttaattggtagttacttctcttgaatgttaagtgcttatgtcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaatgatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG

Basic information

species Glycine max
transcript GLYMA14G04950.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G20960.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaagatggtttttttttctatgcatatctcaaatcaaagttgtattttctcaagttaattggtagttacttctcttgaatgttaagtgcttatgtcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaatgatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG
                                                                                          | | |   ||| |    |  |       | || |  | ||| |  ||| || |   ||| | |  | ||   | || |  || | |    |||| ||| || |  || |||  |||||||| |   |  |||  ||||||||||| || ||||||||  ||||||| || || ||||| ||||||||||||
-----------------------------------------------------------------------------------------gtaaagctctatatattaaagaatagctcttcttagcttactta--caaattgtgaaataattcacttct--ttggttgtcatcaat----agGTTGAAGTAAACGTTTTGACGGGAGAAACAACGATCCTGCGTACAGATATTATCTATGATTGTGGGAAGAGTCTCAATCCCGCTGTTGATTTAGGACAG

upper sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G27150.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaagatggtttttttttctatgcatatctcaaatcaaagttgtattttctcaagttaattggtagttacttctcttgaatgttaagtgcttatgtcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaatgatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG
                                                                                                            |||| ||   |   |||  |  |    |    ||| | |  |   ||  |  |||| ||  | |    |  ||||||||| | || ||| |||  ||| |||||    ||||   | | ||||||||||| || |||||| ||||||| || ||||| || ||||||||||||
-----------------------------------------------------------------------------------------------------------gcaagtcactatgg-gaaacacttctttctttatatttgaatcaatcaaac--aataatgtgattctacttgcagGTGGAAGTGGACCTTGTGACAGGAAAAACCGAGATTTTAAGATCCGATATTATTTATGACTGTGGAAAGAGTCTTAATCCTGCAGTTGATTTAGGACAG

upper sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0041g02410.t01 (Vitis vinifera), 3'ss of exon 6
gtaagatggtttttttttctatgcatatctcaaatcaaagttgtattttctcaagttaattggtagttacttctcttgaatgttaagtgcttatgtcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaatgatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG
                                                                           || | | |    | |||  |  | | ||  ||   |      || |     |||| |  |    | |  || ||||   ||  | ||   | |    | | || ||||||||  || ||||||| | |||| |||||| | |||||||| | |||||||| || || ||||| |||||||| ||||||||||||||||||||||||
--------------------------------------------------------------------------attaagt-tagtattcttcaggtaaacttggaggagactaggctttcatgcttaaccatgct---tcaatttttactataataatgaaacattg----ggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG

upper sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 6
gtaagatggtttttttttctatgcatatctcaaatcaaagttgtattttctcaagttaattggtagttacttctcttgaatgttaagtgcttatgtcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaatgatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG
                      |||  | |    ||||  ||    ||  ||   || ||| ||  ||   |       |  ||| ||  |  |    ||   |  ||  || | | |  ||    |   |||||   ||   |   |  | | || |||| |         | | || ||||||||| || ||||||| | ||||||||||| | |||||||| | |||||||| || || ||||| || || || ||||||||||||||||||||||||
----------------------gcaagtttt---tcaagattac-cttaatcgctttcattagtgcttttgttaaaattaaatta-gtattcttcaggtaaacttggaggagac-tatagcttccatgcttaaacatgct--ccaagttttactatactaattta-actttgggtgtcacagGTGGAAGTAAATCTTCTCACTGGAGAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGGCAAAGCCTCAACCCTGCTGTGGATTTAGGACAG

upper sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0041g02430.t01 (Vitis vinifera), 3'ss of exon 7
gtaagatggtttttttttctatgcatatctcaaatcaaagttgtattttctcaagttaattg-gtagttacttctcttgaatgttaagtgcttatgtcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaatgatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG
                      |||  | |    ||||  |   |||   ||   |  || | ||  ||| |    || | | |    | |||  |  | |  |  ||   ||     || |     |||| |  |    | |  || ||||   ||  | ||   | |    | | || ||||||||  || ||||||| | |||| |||||| | |||||||| | |||||||| || || ||||| |||||||| ||||||||||||||||||||||||
----------------------gcaagtttt---tcaagatcccattaattcctctccatagagtttttattgaaattaagt-tagtattcttcaggtaaacatggaggagagtaggctttcatgcttaaccatgct---tcaatttttactataataatgaaactttg----ggtgtcacagGTGGAGGTAAATCTTCTCACTGGACAAACCACAATTTTGCAATCTGATATTATATATGACTGTGGTCAGAGTCTCAACCCTGCTGTGGATTTAGGACAG

upper sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 7
gtaagatggtttttttttctatgcatatctcaaatcaaa-gttgtattttctcaagttaattggtagttacttctcttgaatgttaagtgcttatg-tcatattttcagacaagccatgttactgaagtaactaaaccaacttatcttatactgccatgctaaatagtggaaat---gatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG
          ||||||     ||| ||   ||  | ||   |||| |||  |  |||||| |    | |  |  | || | |   |   |  || | |   |   | | |  |  |||   | |  | || | |  || |  |||  | ||      |||||| || || || |     | || ||||||||  || ||||||| | |||||||||||   |||||||| | |||||||| || || ||||| ||||| || ||||||||||||||||||||||||
-----gcaagttttttgagattgcctaaaccactttaattattgtttttgttggagttaaattagtgctcttcatgttaacttggagaagactaagcttgcaggctta-atgatgcatcaaattttactatcaaggccgatatatagt-tatgtgtgtgctaa-taatgaaactttgagtgtcacagGTGGAGGTAAATCTTCTCACTGGAGAAACCACCATTTTGCAATCTGATATTATATATGACTGTGGGCAGAGCCTCAACCCTGCTGTGGATTTAGGACAG

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|7283564|gb|AW596170.1|AW596170
EST:     CTAGTAATGATTCCATGGGTTACCTTAGTTATGGTGCTGCAGTAAGTGAG                         GTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATT
genomic: CTAGTAATGATTCCATGGGTTACCTTAGTTATGGTGCTGCAGTAAGTGAGgtaagatggt ... gatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactaaaccaacttatcttatactgccatgctaaatagtggaaatgatttctcagGTGGAAATAGATCTTCTGAATGGAGAAACCAGATTTTTGCAAACAGATATTATTTACGATTGTGGACAGAGTCTAAACCCTGCTGTGGATTTAGGACAG
                            tgctaaa  putative branch site (score: 2)
                                               tttctc  putative PPT
            ttatcttata  TA-rich tract