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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgcacacatatggagttataagcatttctatttgttttgtttttgtggttgactaataatctgtcggtgtttcctctagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT

Basic information

species Glycine max
transcript GLYMA19G43070.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 8
-------------------------------------gta-atgcacacatatggagttataagcatttctatttgttttgtttttgtggttgactaataatctgtcgg----tgtttcc------tctagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
                                     ||  |||     ||    | | | |    | |   ||     || |  ||  ||    ||| |   |||| |    ||||||       |  ||  | |||||| | || |||||| ||||| | ||||||||||| || ||||| ||||| || ||||| ||||| ||||| ||  | |||||||||||||||
gtaattcacagttctagtcttgcccactccagatcttgtgtatgtgtgtatgcacactaaaatatctgtactttcacactgatcatgaagtcatgtaacatcttgtctgcacatgtttctggattttgcagATTATGGGATCTGGGACAGCAGCGATGTATTCATTCTTATGCTGTGCATACTGATTCAGTCTGGGCGCTTGCAAGCACTCCTTCGTTTAGTCATGTTTAT

upper sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 8
gtaa-tgcacacatatggagttataagcatttctatttgttttgttt---------ttgtggt-----tgac----taataatctgtcggtgtttcctct--agGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
||||   ||||  | |    |   || ||| ||  | | |  ||||           ||||||     ||||    ||   |  | |   | ||| || |  || || |||||| |||| |||||| | ||||| ||||||||||| || ||||| |||||||||||||||||||| ||||| ||  ||||| ||||||| || 
gtaaacacacagctctaacatctcaaccatctccctctctcatgttagcataaatgctgtggtaagtttgacatcatagatacatatttttatttactttgcagACTATGGGATCTAGGACAGCAGCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTAC

upper sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatgcacacatatggagttataagcatttctatttgttttgtttttgtggttgactaataatctgtcggtgtttcctctagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
||  || |    | |  | |  ||   |  | |  | | |   |  ||   |||  ||||     | |   | |    | ||| || |||||| ||||||||||| ||||| | ||| | ||||| || |||||||||||||||||||| |||||  ||| |||| |||||||||||||||||
gtc-tgtatttttcttaactagtacataactatgatagctgaatcatttcagtt--ctaactggttctaaat-tcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT

upper sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 8
--------------gtaatgcacacatatggagttataagcatttctatt--tgttttgtttttgtggttgactaata-atctgtcggtgtttcctctagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
               ||     |   |||    ||||||  | | || ||  || ||  | |   || |  ||   || |||| ||      |     ||||| |||||| | |||||||||||||| |||||||| ||||| || |||||||||||||| ||||||||||| ||||||||||||||||| |||||||||
atcacgcattcaatatatgtttcgtttatttccttataattaatccttttagtgcttcatgtggttgatcaacctgtacatctctcttcacatttcacagGCTATGGGATCTTGGTCAGCAGAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTAT

upper sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S28_153V6.1 (Physcomitrella patens), 3'ss of exon 6
gtaatgcacacatatggagttataagcattt-----------ctatttgttttg---tttttgtggttgactaataatctgtcggtgtttcctc---tagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
|||      |  |   |  ||||||    ||           | |  |  |  |   | |||     | |  |  ||||| ||  | | | | |    ||||| |||||  | || || ||  | ||  | ||||||||||| ||||| |  |||||||||||||| ||||| ||||| ||| |||| |||||||| |||
gtatgagctagttgccggtttataattgcttatctgattcgaccacctagtaagagttcttttctacttatgagaaatctctcattttctgcacatacagGCTCTGGGACTTGGGGCAACAACGTTGCATTCATTCTTATGCGGTTCACATTGATTCTGTTTGGGCCCTTGCAAGCACGCCATCATTCAGTCATGTGTAT

upper sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S69_10V6.1 (Physcomitrella patens), 3'ss of exon 8
-----gtaatgcacacatatggagttataagcatttctatttgttttgtttttgtggttgactaataatctgtcggtgtttcctct-------------agGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
     |||| |   | ||     |||  || ||||  |  | ||  || || |    ||   |  || ||  | |  ||  | | |             |||||||||||| |||| || ||  | ||  | ||||||||||||||||||||||||||||| ||||| ||||| ||||| ||  | || ||||| || |||
atttggtaaggttaatattccacgttg-aaacattcttcctcgtagtggttgtaatttttcttcctactcattagaagtcccttattttcataatatgcagGCTTTGGGATTTAGGACAACAACGCTGCATTCATTCTTATGCAGTTCATACAGATTCTGTCTGGGCTCTTGCAAGCACGCCTTCCTTCAGTCACGTGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctatttgttttgtttttgtggttgactaataatctgtcggtgtttcctctagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
                          gactaat  putative branch site (score: 2)
                                           tgtttcctct  putative PPT
     atttgttttgttttt  TA-rich tract