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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctattctttatagtcattatgatttataattgaagtcgtcttgctattttaattaaataagctatctggtgtaattattctcaaaatattgtctacacagGCACATGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGGATAGTTAGCAAACTACTTGTACTTC

Basic information

species Glycine max
transcript GLYMA05G28950.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G28950.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g49420.2 (Oryza sativa), 3'ss of exon 1
----ctattctttatagtcattat-gatttataattga-agtcgtcttgctattttaattaaataagctatctggtgtaattattctcaaaatattgtctacacagGCACATGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGGATAGTTAGCAAACTACTTGTACTTC
    || |    |||| | |  || || || | ||| | |  | ||  | |||   |  || | | ||| |      | ||| || |  |       |     |||||||| || ||||| ||  |||| ||||||||||| |||||||  |||||||| || || ||||||||||||||||||||| | ||||||||   | | |
ttttctttgacatatacttacaattgacttgtcattaatacccatcaagttatc--agctagacatgctcta----atcattgttttatattccgaatgagttcagGCACACGCAGCTTCTGCGATTCTAAACTTCAGCGAAAACTGCAGGCCTGATATTTTGACACCATACTTGGATGGGATAGTTGGGAAACTACTGTCATTGC

upper sequence: GLYMA05G28950.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 1
ctattctttatagtcattatgatttataattgaagtcgtcttgctattttaattaaataagctatctggtgtaattattctcaaaatattgtctaca----cagGCACATGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGGATAGTTAGCAAACTACTTGTACTTC
 |  | |  |||      | |  ||   ||    |   | |    |     |  |  | | | ||  ||  |  |   ||  |   ||||  |||||    |||||||||||||| |||||  |||| |||||||| || ||||||| ||||||||| || || |||||||||||||  |||||| | ||||| ||  |  | |
-tggtttacataaagtcgagggcttgctatatctgctct-tcatcaaacacaccagctgaccaataaggcat--tctctcatattttatttcctacatgttcagGCACATGCTGCATCAGCTATTCTGAACTTCAGTGAAAACTGCAGACCTGATATTTTGACACCATACTTGGATGTAATAGTTGGGAAACTTCTATTGTTAC

upper sequence: GLYMA05G28950.2 (Glycine max), 3'ss of exon 4
lower sequence: AT5G19820.1 (Arabidopsis thaliana), 3'ss of exon 2
ctattctttatagtcattatgatttataattgaagtcgtcttgctattttaattaaataa-gctatctggtgtaattattctcaaaatattgtctacacagGCACATGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGGATAGTTAGCAAACTACTTGTACTTC
                       | | |      ||     ||  | | ||||    |||  || |||   | | |    ||    |  || || |   |||| ||||||||||||||||| ||||||||||| || || || || ||||| || ||  | || || || || ||  |||| |||||  ||||||| || |
----------------------gtaagatcccctgtttctctgtgaatataatcttctaacactttctaaagcagta--ccttgtgaccttttc-atgtagGCTCATGCTGCTTCAGCAGTACTCAACTTCAGTGAAAATTGTACTCCTGAAATATTGTCACCTTATTTAGACGGAGTAGTGAGCAAGTTACTTGTGCTAC

upper sequence: GLYMA05G28950.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g00500.t01 (Vitis vinifera), 3'ss of exon 2
ctattctttatagtcattatgatttataattgaagtcgtcttgctattttaattaaataagctatctggtgtaattattctcaaaatatt---gtctacacagGCACATGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGGATAGTTAGCAAACTACTTGTACTTC
     ||   |  |||  || |||| || ||  | |  ||| | | |||   || ||| |  ||  |  |     | |||      | ||    | |  ||||||||||||||||||||| || ||||||||||| ||||||||||| || ||||| ||||||||||| || ||||| || ||| ||||| |||| |||||||
agtggctcagtgctcaagattattt-tatttttaattttctcgttctttactttgaatga--tagttaataatggttttccattgttgttcgaatttctacagGCACATGCTGCTTCAGCTGTGCTCAACTTCAGTGAGAACTGCACTCCAGATATTTTAACGCCATATTTAGATGGAATTGTTGGCAAATTACTAGTACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttaattaaataagctatctggtgtaattattctcaaaatattgtctacacagGCACATGCTGCTTCAGCAGTTCTCAACTTCAGCGAGAACTGCACACCTGATATCTTAACGCCATACTTGGATGGGATAGTTAGCAAACTACTTGTACTTC
 ttttaat  putative branch site (score: 3)
                        tgtaattattctcaaa  TA-rich tract