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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttatcctagaactttgcaaactttgtctcgttcttctcatggtttttctttgtttgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT

Basic information

species Selaginella moellendorffii
transcript EFJ06373
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ06373 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: LOC_Os11g10420.2 (Oryza sativa), 3'ss of exon 14
----gtgagttatcctagaact------ttgcaaactttgtctcgttcttctcatggtttttctttgtttgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT
    || |  | || |  ||||      ||||| |    || |     |||| |||   | |||| || || |    |||||||||||| ||  ||||  | || || ||||| || ||| | ||||| |||||||||||||||||||||||||| ||  | || |||||||| ||   ||
gttagtcaactgtcttgtaactcatcatttgcagagggggttttacagttctaatg--ctatcttggtatggtt---gcagCAATGCGTGTCTCTGGTGCTTTCACTTATCAGTAGCAGCATGGATGCATGGCGTACTCGGCAGTATGATTACTACCAGAGAGTATTGAATGGGATTTTAT

upper sequence: EFJ06373 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: GRMZM2G176698_T01 (Zea mays), 3'ss of exon 15
-----gtgagttatcctagaactttgcaaactttgtctcgttcttctcatggtttttctttgtttgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT
      | | | ||| | ||   |    | | ||        ||| |  |   | ||   |  || |||||| |||||||| || ||| ||||  | || || ||||| || ||| | ||||||||||| |||||||| ||||||||||| ||  | || |||||||||||   ||
gttggcttactaatcttcgag--tcatcatcatttctagaacctttttctaactattaccttattattcttg-cagCAATGTGTATCCCTGGTGCTCTCACTGATCAGTAGCAGCATGGATGCTTGGCGCACTCGGCAATATGATTACTACCAGAGAGTATTGAATGGAATTTTAT

upper sequence: EFJ06373 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: GLYMA05G32460.1 (Glycine max), 3'ss of exon 15
------------gtga-gttatcctagaactttgcaaactttgtctcgttcttctcatggtttttctttgtttgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT
             | | |||| |     |  |  ||||  ||     ||     |  |     |  | |  || || |||||||||||| |||||||||||  | || ||||| ||||||||| | ||||||||| | || |||||||||||||| |||||  | ||||||||||||||   ||
gtttcaatattaataatgttacctatttaactgtcaaatgtttctgggtgtgattgttaagagtgttataattctttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGTAGCCTGGATGCTTGGAGGACGCGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT

upper sequence: EFJ06373 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: GLYMA08G16620.1 (Glycine max), 3'ss of exon 17
------------gtga-gttatcc-tagaact-ttgcaaactttgtctcgttcttctcatggtttttctttgtt-tgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT
             | | |||| |  |  |||| |  ||   |||     ||  || | | |  |     || |  | || |||||||||||| |||||||||||  | || ||||| ||||| ||| | ||||||||| | || |||||||||||||| |||||  | ||||||||||||||   ||
gtttcaatattaataatgttacctatttaactgtcacatgtttttaggtgtgatttttaagagtgagtgttataatttttttggcagCAATGTGTCTCCTTGGTGCTTTCACTCATTAGCAGCAGCCTGGATGCTTGGAGGACACGGCAGTATGATTATTATCAGAGGGTTTTGAATGGAATATTAT

upper sequence: EFJ06373 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: GLYMA04G39150.1 (Glycine max), 3'ss of exon 16
-----gtgagttatcctaga-actttgcaaactttg-tctcgttcttctcatggtttttctttgtttgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT
        | | ||  |||  ||| |   |||| |  | |  ||   ||  | | |    ||| ||  ||||||||||||||| || || |||||  | || ||||| ||||||||| | ||||| ||||| || |||||||||||||| || ||  | ||||||||||| ||    |
gtttcaatactaatattagttactctcttaactgtaattttttttgcctgtttgctacatttttttctttcttggcagCAATGTGTATCTTTGGTGCTTTCCCTCATTAGCAGTAGCCTGGATGCATGGCGGACACGGCAGTATGATTATTACCAGAGGGTTTTGAATGGGATATTGT

upper sequence: EFJ06373 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: GLYMA06G15820.1 (Glycine max), 3'ss of exon 16
-----gtgagttatcctaga-actttgcaaactttgtctcgttcttctca---tggtttttctttgtttgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT
        | | ||  |||  ||| |   |||| | | |  || |   |    || |   | ||| ||   |||||||||||||| || || |||||  | || ||||| ||||||||| | ||||| ||||| || |||||||||||||| || ||  | |||||||| || ||    |
gtttcaatactaatattagttactctcttaactgtatttttttttcgcctgtttgctacattttttttctctcttggcagCAATGTGTATCTTTGGTGCTTTCCCTCATTAGCAGTAGCCTGGATGCATGGCGGACACGGCAGTATGATTATTACCAGAGGGTTTTGAACGGGATATTGT

upper sequence: EFJ06373 (Selaginella moellendorffii), 3'ss of exon 17
lower sequence: Vv04s0044g01210.t01 (Vitis vinifera), 3'ss of exon 14
----------------gtgagttatcctagaactttgcaaactttgtctcg---ttcttctcatggtttttctttgtttgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT
                 | | | ||  ||| | || || ||  |  | | |   |  |  |||| |    | ||| ||  ||  | ||||||||| || || |||||  | || || |||||||| ||||||||||| ||||| || |||||||||||||| |||||  | ||||| ||||| |||   |
gtttgattttaattttatca-tcattttagta-ttagctaatatatttttgagatgatggtcattgacagtatttcttgatttctagcagCAATGTGTATCTTTGGTGCTCTCCCTGATCAGCAGCAGCTTAGATGCATGGCGGACACGGCAGTATGATTATTATCAGAGGGTTTTAAATGGGATCTTGT

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|169034965|gb|FE445866.1|FE445866
EST:     AAACGATCCTGAATTTGAGAAAGCGTTTCCATCTTAGCTTGACTGAGGAG                         CAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGG
genomic: AAACGATCCTGAATTTGAGAAAGCGTTTCCATCTTAGCTTGACTGAGGAGgtgagttatc ... ttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttgcaaactttgtctcgttcttctcatggtttttctttgtttgttcttggcagCAATGCGTCTCCTTGGTCTTGTCGCTCATCAGCAGTAGCTTAGATGCTTGGCGTACTCGGCAGTATGATTACTATCAACGTGTTTTGAATGGAATCCAAT
                               tttttctttgtttgtt  CT-rich tract
                               tttttcttt  TA-rich tract