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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaatgtgacttctgtatattgttgtgctctttgtgaaattatgctttcccttgggtcgattctagtatgctattgactgaacattgtttcattttgtagATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTGCATAAGACACCAGATTGTTGCAAA

Basic information

species Glycine max
transcript GLYMA17G01180.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G01180.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G47540.1 (Arabidopsis thaliana), 3'ss of exon 3
-tgaatgtgacttctgtatattgttgtgctctttgtgaaattatgctttcccttgggtcgattctagtatgctattgactgaacattgtttcat--tttgt---agATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTGCATAAGACACCAGATTGTTGCAAA
 ||| | |    | |   |||  |||   |  ||      |  |  || |   |     ||| | |  ||  |||    |  | |   || |||  |||||   || |  || ||||||||||||||||||||||| ||||| ||||| |||||||| ||  | || |||||||| || ||
gtgagtcttgtgtgttactatcattgaagttattagttggtagtttttccaaattaagagatacca-cattttatcatttttatagctttccatgttttgtgtcagCTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAA

upper sequence: GLYMA17G01180.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0405g00020.t01 (Vitis vinifera), 3'ss of exon 3
tgaatgtgacttctgtatattgttgtgctctttgtgaaattatgctttcccttgg-gtcgattctagt---atgctattgactgaacattgtttcattttgtagATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTGCATAAGACACCAGATTGTTGCAAA
    |  | | | || | ||  ||||      | |  |   ||||| |   |||| ||  |||||| |   || ||  | | |    | |  |   || | ||| ||||| |||||||||||||||||||| || ||||||||| |||| ||||||||| | || |||| |||||| | 
---ttaggtcgtatgaaaatctttgttaaggct-tctatcaatgctatttgttggtgtatattctaatcggattcttctaattctcaaattctggtttatttagTTATGACAACACAGACATGGCTTTACATTATGGTGCAATGCTGAGAGAGTGCATACGCCATCAGACTGTTGCCAG
















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|8284716|gb|BE022258.1|BE022258
EST:     TCTGATTACTTGGATACTAATTTGGATCTTATGGATGTCTTGGTATCTGG                         ATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTG
genomic: TCTGATTACTTGGATACTAATTTGGATCTTATGGATGTCTTGGTATCTGGgtaagcacca ... cattttgtagATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTG
EST: gi|7796054|gb|AW781451.1|AW781451
EST:     TCTGATTACTTGGATACTAATTTGGATCTTATGGATGTCTTGGTATCTGG                         ATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTG
genomic: TCTGATTACTTGGATACTAATTTGGATCTTATGGATGTCTTGGTATCTGGgtaagcacca ... cattttgtagATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTG
EST: gi|151410067|gb|EV279875.1|EV279875
EST:     TGATTACTTGGATACTAATTTTGGACCTTATGGATGTCTTTGGTATCTGG                         G
genomic: TGATTACTTGGATACTAATTT-GGATCTTATGGATGTCTT-GGTATCTGGgtaagcacca ... cattttgtag-
EST: gi|151410067|gb|EV279875.1|EV279875
EST:     TGATTACTTGGATACTAATTTTGGACCTTATGGATGTCTTTGGTATCTGG                         G
genomic: TGATTACTTGGATACTAATTT-GGATCTTATGGATGTCTT-GGTATCTGGgtaagcacca ... cattttgtag-
EST: gi|192295830|gb|FG992626.1|FG992626
EST:     TCTGATTACTTGGATACTAATTTGGATCTTATGGATGTCTTGGTATCTGG                         ATATGAAAACACAGACATGGCTT
genomic: TCTGATTACTTGGATACTAATTTGGATCTTATGGATGTCTTGGTATCTGGgtaagcacca ... cattttgtagATATGAAAACACAGACATGGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcccttgggtcgattctagtatgctattgactgaacattgtttcattttgtagATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTGCATAAGACACCAGATTGTTGCAAA
                          tattgac  putative branch site (score: 2)
                                          tttcatttt  putative PPT
                                          tttcatttt  TA-rich tract