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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttgttctgttgtagttgatctaaactgtgaagtgacagtgagcaatcgttcttctttctttttatttttatgttttattttattttttaaatctgttgatgagtttggttctttttcagGGAAAAGAGAGGGAGGCCTGGCTTCAACAACTCACATATGGTGTTTTTGGTCTGGGTAACCGCCAATATGAACATTTTAACAAG

Basic information

species Vitis vinifera
transcript Vv18s0001g07630.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G36070.1 (Glycine max), 3'ss of exon 4
gttagttgttctgttgtagttgatctaaactgtgaagtgacagtgagcaatcgttcttctttctttttatttttatgttttattttattttttaaatctgttgatgagtttggttctttttcagGGAAAAGAGAGGGAGGCCTGGCTTCAACAACTCACATATGGTGTTTTTGGTCTGGGTAACCGCCAATATGAACATTTTAACAAG
     ||||  | ||  | |   |||   ||  ||| |  ||        ||  |||   |   | | ||   | ||  | |      || | |  | ||  ||     ||      ||       | | |||||||    |||||||||||| ||||| ||||||||||||||  | |||||||| ||||||||||||||||| |||
---gtttgtagtattaca-tcactctt--ctaagaaatt-caagatttggtctctctctctctctctcatggctctgcataaaaaggattctaagttttggagacataatt------ttagGGTAAAGACGAGAGGGGTATCTGGCTTCAACAGCTCACGTATGGTGTTTTTGGCTTAGGTAACCGGCAATATGAACATTTTAATAAG

upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G10180.1 (Glycine max), 3'ss of exon 4
gttagttgttctgttgtagttgatctaaactgtgaagtgacagtgagcaatcgttcttctttctttttatttttatgttttattttatttt-ttaaatctgttgatgagtttggttctttttcagGGAAAA--GAGAGGGAGGCCTGGCTTCAACAACTCACATATGGTGTTTTTGGTCTGGGTAACCGCCAATATGAACATTTTAACAAG
||| || |||   |     || |   || |    |  | |      ||  ||    | |  | |  | |||   |||  ||| ||||  |  ||  |  | ||| || |     ||  ||||  ||||||   |||||||   ||||||||||||| ||||||||||| |||||||| ||||||||| | ||||| ||||| ||||| |||
gtttgtagttacatcacttttaagtaaatcctacatcttaggccttgctctctccttgcaatttcataattcacatggcttactttaaatgattctaagttttggtgggc---attaattttagGGGAAAGATGAGAGGGGCACCTGGCTTCAACATCTCACATATGGAGTTTTTGGCCTGGGTAACAGACAATACGAACACTTTAATAAG

upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G10200.1 (Glycine max), 3'ss of exon 4
gttagttgttctgttgtagttgatctaaactgtgaagtgacagtgagcaatcgttcttctttctttttatttttatgttttatttta--ttttttaaatctgttgatgagtttggttctttttcagGGAAAAGAGAGGGAGGCCTGGCTTCAACAACTCACATATGGTGTTTTTGGTCTGGGTAACCGCCAATATGAACATTTTAACAAG
||| || |||   |     || |  ||||   |  | |   ||    || ||  ||| ||| | ||||  |   |||  ||| || |  |  ||  ||  | |||  |   ||  ||  ||    |  | | |||||||   ||| ||||||||| ||||||||||| |||||||| ||||||||| | ||||| ||||| ||||| |||
gtttgtagttacatcacttttaag-taaatcctaca-tcttaggcctcactc--tctccttgcattttcataacatgccttacttaaaatgattctaagtttttgtgggcattaatt--ttagGGGAAAGATGAGAGGGGAACCTCGCTTCAACAGCTCACATATGGAGTTTTTGGCCTGGGTAACAGACAATACGAACACTTTAATAAG

upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G37850.1 (Glycine max), 3'ss of exon 4
gttagttgttctgttgtagttgatctaaactgtgaagtgacagtgagcaatcgttcttctttctttttatttttatgttttattttattttttaaatctgttgatgagtttggttctttttcagGGAAAAGAGAGGGAGGCCTGGCTTCAACAACTCACATATGGTGTTTTTGGTCTGGGTAACCGCCAATATGAACATTTTAACAAG
         | ||| ||| |  |||     | | |    |     |  | | | | |   |   | |      |||  || |    |||    |||  | | |  |    |  || |   | |  ||  | || || |  ||||||||||||| ||||||||||||||||||||  | |||||||  || ||||| |||||||| |||
--------gtttgtagtattacatcccttttctaagaaaat--ccaagatttgatgtctctctctctctcagctatacttaaaaggattc---aaagttttgg--ggacataattttagGTTAAAGACGACAGGGGTA--CCTGGCTTCAACAGCTCACATATGGTGTTTTTGGCTTAGGTAACCAGCAGTATGATCATTTTAATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttatgttttattttattttttaaatctgttgatgagtttggttctttttcagGGAAAAGAGAGGGAGGCCTGGCTTCAACAACTCACATATGGTGTTTTTGGTCTGGGTAACCGCCAATATGAACATTTTAACAAG
                             tgttgat  putative branch site (score: 4)
                                       tttggttctttttc  putative PPT
        ttttattttatttttt  TA-rich tract