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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtgattacttttcactgtactacttggtctttggcctctattgtatgtgttttggcagcattgtcacctaagtatccacattttcttttggtggaagtgtgttttgaggagccatggtttatagttttgtatctgatcaatttcttctcaattcttgtctcccaGGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAAACATTGTTAGCTAGGGCAATTGCCAGTAACATAGATGCTAACTTCTTGAA

Basic information

species Glycine max
transcript GLYMA17G37220.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G37220.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g13090.t01 (Vitis vinifera), 3'ss of exon 4
ggtgattacttttcactgtactacttggtctttggcctctattgtatgtgttttggcagcattgtcacctaagtatccacattttcttttggtggaagtgtgttttgaggagccatggtttatagttttgtatctgatcaatttcttctcaattcttgtctcccaGGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAAACATTGTTAGCTAGGGCAATTGCCAGTAACATAGATGCTAACTTCTTGAA-
      |  ||   ||| ||  | ||| |  ||   || ||| || |||  |      |||||||||  | |||    |    | ||  |||||| |   ||     |   |   |  ||| |  ||   ||  | |  | | ||||     || || | |  |||||||||||||||||||||||||||||||||||||| ||||| |||||||| |||||||||||||| |||||||| ||||||||||| 
-----gtgattcatacttta--atttgttagttattctgtatggtctgttct------gcattgtcaattgagt---tagccatcctagtggtggtaacatg-----aatggattttattttt--ttccttaattaaaaagtctcttaaattttatttttttgcagGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAGACATTATTAGCTAGAGCAATTGCCAGTAATATAGATGCCAACTTCTTGAAG

upper sequence: GLYMA17G37220.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S47_46V6.2 (Physcomitrella patens), 3'ss of exon 4
ggtgattacttttcactgtactacttggtctttggcctctattgtatgtgttttggcagcattgtcacctaagtatccacattttcttttggtggaagtgtgttttgaggagccatggtttatagttttgtatctgatcaatttcttctcaattcttgtctcccaGGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAAACATTGTTAGCTAGGGCAATTGCCAGTAACATAGATGCTAACTTCTTGAA-
                                                              |||||   | ||      | ||        |  | || |  |     ||     |||   | | |  |||     |  ||     ||   ||    || | ||||||||  |  | |||||||||||||| ||||| |||||  | |||||  | ||||||||||| ||||| |||||||| ||  |||| 
--------------------------------------------------------------tgtcaatcaggttcatgtacttgacgcgcataaaggtttaatgaccagatttgaggtg-gtcgatgcgtaatgttttgatactacct--gttgccatc-cacagGGTGTGTTGTTATATGGGCCTCCTGGGACTGGTAAAACTCTTTTAGCACGAGCAATTGCCAGCAACATTGATGCTAATTTTCTGAAG
















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|16279081|gb|BI943248.1|BI943248
EST:     GTTGGAATTAAACCTCCTAA                         GGGTGTTCTCCTTTATGGGCCTCCTGGTACTGGTAAAACATTGTTAGCTAG
genomic: GTTGGAATTAAACCTCCTAAggtgattact ... ttgtctcccaGGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAAACATTGTTAGCTAG
EST: gi|192308350|gb|FK001336.1|FK001336
EST:     CCTCTGATGAATCCTGAGCTCTTCATTCGAGTTGGAATTAAACCTCCTAA                         GGGTGTTCTCCTTTATGGGCCTCCTGGTACTGGTAAAACATTGTTAGCTAG
genomic: CCTCTGATGAATCCTGAGCTCTTCATTCGAGTTGGAATTAAACCTCCTAAggtgattact ... ttgtctcccaGGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAAACATTGTTAGCTAG
EST: gi|16281445|gb|BI944491.1|BI944491
EST:     CCTCTGATGAATCCTGAGCTCTTCATTCGAGTTGGAATTAAACCTCCTAA                         AGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAAACATTGGTAGCTAG
genomic: CCTCTGATGAATCCTGAGCTCTTCATTCGAGTTGGAATTAAACCTCCTAAggtgattact ... ttgtctcccaGGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAAACATTGTTAGCTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccatggtttatagttttgtatctgatcaatttcttctcaattcttgtctcccaGGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAAACATTGTTAGCTAGGGCAATTGCCAGTAACATAGATGCTAACTTCTTGAA
                     atctgat  putative branch site (score: 4)
                               tttcttctcaattctt  putative PPT
        tttatagttttgtat  TA-rich tract