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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgttcgtcttccttaattaatttcgctttctgccatttcctctttttttttttttcacttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG

Basic information

species Glycine max
transcript GLYMA02G01920.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
gttcgtt-cgtcttccttaattaatttcgctttctgccatttcctctttttttttttttcacttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG
|||||     |  || |||   ||  |||  || |  | | |||||          ||||||    | | | ||| |||||||| |||             ||||| |||||||| || || || |||||| ||||||||||||| ||||||||    ||||| || ||||| ||||| ||  | ||||| ||||||||||||
gttcgggatctgatctttacgcaacgtcgaattttctcttatcctcgagggaaacgtttcacag--tgttttatt-tgttgtgtgtct------------cagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG

upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G50950.2 (Arabidopsis thaliana), 3'ss of exon 1
gttcgttcgtcttccttaattaatttcgctttctgccatttcctctttttttttttttcacttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG
                   |     ||   |  |  |  |   | |  || |  | |  |      || |  |    || | | | ||   | ||||   ||||||||||||||||| || || |||||| | ||||||||||| || |||||   |||||| || ||||||||||| ||| | || || ||||| ||||||
-----------------gttcggaatcagatctttacgatatatatcgttctgatctcgagggaaaatattctcacatttt-tatttgttgttctgtgtcagATTATGGGGAGCACAGACGCAGAGATCGCTTCAGAACTTCGAGATTGGTGGTGACCGCGAGCGAATGCCCGAACCAATCGTCCGAGCTTTTGGTGTCTTG

upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 2
gttcgttcgtcttccttaattaatttcgctttctgccatttcctctttttttttttttcacttcttatctgattgtgtt--gtgtttctgaactactgttat--agATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG
        |   |    || | || | | |       ||||    |  || |    |     |  ||     || | ||   | ||| || |||  | |  |  ||||| ||||| ||||||||||||||||| |||||||| || ||||| |||||    || ||||  ||||| ||||| |||||||| || |||||| || | 
-----acggatgtatagaagtgatgt-gatacaaaagatttaagttaattctggaataggtatggtaataacttatttttaatttttttggactgatatctttcagATTGTGGGGTGCACAAACTCAAAGATCATTGCAGAATTTTGATATTGGTGGTGAGCGTGAACAAATGCCTGAACCAATCATTCGAGCTTTTGGCATCCTT

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|15589604|gb|BI674220.1|BI674220
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|193685308|gb|FK625782.1|FK625782
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|19347447|gb|BM892327.1|BM892327
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|192310921|gb|FG998897.1|FG998897
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|298178427|gb|HO024162.1|HO024162
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|192322683|gb|FK015020.1|FK015020
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|192310776|gb|FK000290.1|FK000290
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|16281620|gb|BI944581.1|BI944581
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|209714881|gb|BW682046.1|BW682046
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|209717303|gb|BW659018.1|BW659018
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttttcacttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG
                   atctgat  putative branch site (score: 4)
     ttttttca  TA-rich tract