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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttctattttatctcatggtggactttggaaaaattattttcctctatatttataatgtatcatttctgcatgtttatttcctttacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC

Basic information

species Glycine max
transcript GLYMA07G15930.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g16690.1 (Oryza sativa), 3'ss of exon 2
tttctattttatctcatggtggactttggaaaaattat-tttcctctatat----ttataatgtatcatttctgcatgt-ttatttcctttacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC
       | | |||   ||  || |     |   || | ||||  ||  |     || |  ||||| ||  || ||| |  | ||  | || |    | | | ||||| || |||||||| ||||| |||||||| |||||  | ||  | ||| | |||||| | ||||||||||| || ||||||||||| |||||||||||||
-----gatctttctagaggatgattggaacacctttgtatttcagctgcacagtgttctcgtgtat-atcccttcatatgctcttgacattccaattaatctgcagGATCGTGATAGTTATTGGAAGATGATGCACAAGTACATAGGGGCAGATGTTACATCACTTGTGACACTTCCGGTCATCATTTTTGAGCCAATGACAATGC

upper sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 2
tttctattttatc--tcatggtggactttggaaaaattattttcctctatatttataatgtatcatttctgc-atgtttatt--tcctttacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC
     ||  ||    | ||| |  |  |    |  ||  |   | |  |  | |    ||  |||      | || ||||    || | |      | ||| ||||| || ||||| |||||||| |||||||| || ||  | || || ||| | |||||| | |||||||||||||| || |||||||| |||||||||||||
-----atcgtagtagttatgatccaactatttactatcctacacttggagttctgacctgattcaggatcacgatctttaacaatcatgtgtggttaatttgcagGACCGTGATAGCTACTGGAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGC

upper sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G114126_T02 (Zea mays), 3'ss of exon 2
--tttctattttatctcatggtggactttggaaaaattattttcctctatatttataatgtatcatttctgcatgtttatttcctt-tacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC
  | |   ||| |  |||| || |  ||  ||     || ||     | |  |  | ||  |  ||  ||  || || |   |||| |      | ||| ||||| || ||||| || ||||| |||||||| |||||  | || || ||| | |||||| | |||||||||||||| || |||||||| |||||||||||||
tctatggttttaaggtcatagtagttttacgatcgtatacttgaagttctggtc-tgattcaggatcact--attttaacaaccttgtgtggttaatttgcagGATCGTGATAGCTATTGGAAGATGATGCACAAGTACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGC

upper sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 2
tttctattttatctcatggtggactttggaaaaattattttcctctatatttata-atgta-tcatttctgcatgtttatttcctttacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC
        | ||    ||| |||    | ||| |    ||  || ||||||| || || |  | |||  |||   ||| ||   || | ||    ||| ||||| || || ||||||||||| |||||||| |||||| | ||||||||| |||||||||||||||||||||| ||||| |||||||| ||  |||| || |
--atggagtgataaattgggggaaaaagaaaagaaggcttctctgtatatttttacatatggttattgatgctcattttttgggttaattttttttttccagGACCGGGACAGTTACTGGAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATAC

upper sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 2
lower sequence: PP1S148_87V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------------------------------------------------------tttctattttatctcatggtggact---ttggaaa-aattattttcctctatatttataatgt------atcatt---tctgcatgttta--------tttcctttacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC
                                                                      || |     |   || | |||   ||||||  ||||    ||||||  | || ||||||      |||| |   || ||    |||        |||   |||  |      | |||||  |||| ||||| |||||||||||||| |||||  | || ||||| || || |||||||||||||||||||| ||||| ||||| || ||||| | ||
gtgaccttcatcttcatgccttaagcatcgagatcagtaatcatttttaatgtatgttgtggtgtggcattagtgccaatttcggcgaactggattggaattaatttaactcctcttgaattttaatgtgaaagaatcagtacatcggctgccttaccgttgggtttttgttatgtggcaagtgcagGATAGAGAAAGTTATTGGAAAATGATGCACAAGTACATAGGTTCTGACATTACTTCAATGGTGACACTTCCAGTCATCATATTTGAGCCCATGACTACGC

upper sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 2
lower sequence: EFJ08612 (Selaginella moellendorffii), 3'ss of exon 2
tttctattttatctcatggtggactttggaaaaattattttcctctatatttataatgtatcatt-tctgcatgtttatttcctt-tacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC
                  ||     ||       |  ||||| | |   || |  |  | |  || | ||  |  | | |   |  |  ||||  |  | |||| || || || ||||||||||||||||| |||||| |||| || ||  |||| || ||||||||||| |||||| | |||||||| || ||||| ||||
------------------gtaagtcttcccttgttctttttcttgttctttcaatacttgtttttgtttgtttcctcactctttggtctttacgatcgatagGATCGTGAGAGCTACTGGAAAATGATGCACAAGTATATTGGATCGGACGTCACTTCCATGGTGACACTGCCAGTTTTGATTTTTGAGCCCATGACGATGC

upper sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 2
lower sequence: EFJ19778 (Selaginella moellendorffii), 3'ss of exon 2
tttctattttatctcatggtggactttggaaaaattattttcctctatatttataatgtatcatt-tctgcatgtttatttcctt-tacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC
                  ||     ||       |  ||||| | |   ||||  |  | |  || | ||  |  | | |   |  |  ||||  |  | |||| || || || ||||||||||||||||| |||||| |||| || ||  |||| || ||||||||||| |||||| | |||||||| || ||||| ||||
------------------gtaagtcttcccttgttctttttcttgttcttttaatacttgtttttgtttgtttcctcactctttggtctttacgatcgatagGATCGTGAGAGCTACTGGAAAATGATGCACAAGTATATTGGATCGGACGTCACTTCCATGGTGACACTGCCAGTTTTGATTTTTGAGCCCATGACGATGC

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|254327936|gb|GR834901.1|GR834901
EST:     GATGGAAACAAGAG                         GAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATC
genomic: GATGGAAACAAGAGgtatactact ... cactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATC
EST: gi|19053342|gb|BM732009.1|BM732009
EST:     GAACTGAAGATGCTGAAGAGGAAGCAAGAAAGGGACGATGGAAACAAGAG                         GAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATC
genomic: GAACTGAAGATGCTGAAGAGGAAGCAAGAAAGGGACGATGGAAACAAGAGgtatactact ... cactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatttataatgtatcatttctgcatgtttatttcctttacttacactttacagGAGCGAGATAGTTACTGGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCAGTTATCATTTTTGAACCAATGACAATGC
                                       tacttac  putative branch site (score: 1)
                                tttcctttacttac  CT-rich tract
     ttataatgtatcattt  TA-rich tract