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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgactttagtcataattattgtggtagtttttaattcttcatggcttctggacttattgttctggtatctgttctaacctataaatgtttctgtgcagACATTATGTCGAATGTTTATAATCAATGCTGGTCCCGGTTTTAAGCTGCTTTGGAACACGGTGAAATCATTTCTTGATCCCAAAACTACTTCAAAGATAA

Basic information

species Glycine max
transcript GLYMA14G07850.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G07850.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 6
gtatgtgactttagtcataattattgtggtagtttttaattcttcatggcttctggacttattgttctggt--atctgttctaacctataaatgtttc-tgtgcagACATTATGTCGAATGTTTATAATCAATGCTGGTCCCGGTTTTAAGCTGCTTTGGAACACGGTGAAATCATTTCTTGATCCCAAAACTACTTCAAAGATAA
                         ||   ||  |    || || |     |||    || || || || |     | |  |    || |  |||| | | | |||||  |||  | |||||||||  ||||||||||||| |||||   ||| || |||||||| ||||| || ||||||||||||||||||||  | |||||| 
-------------------------gtatgagcctcattttttttacactctcttttgttgtttttttgcttggaatatattgggtta-atttgttgcatctccagACTCTATACCAAATGTTTATTGTCAATGCTGGTCCGGGTTTCCGGCTACTATGGAACACTGTGAAGTCCTTTCTTGATCCCAAAACTACCGCCAAGATAC

upper sequence: GLYMA14G07850.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G19650.2 (Arabidopsis thaliana), 3'ss of exon 4
gtatgtgactttagtcataattattgtggtagtttttaattcttcatggcttctggacttattgttctggtatctgttctaacctataaatgtttctgtgcagACATTATGTCGAATGTTTATAATCAATGCTGGTCCCGGTTTTAAGCTGCTTTGGAACACGGTGAAATCATTTCTTGATCCCAAAACTACTTCAAAGATAA
                     |||||| |  | |   |||  |   |     |   || | ||  |  |   | | |  |||  | | |       |||||||||| |    || |||||||| |||||||| ||| | ||||||||||| ||||||  |||||||||||| ||||||||||| || |||   || || ||| 
--------------------gtattgtcg--gctgccaatgatatttattagcaaaacctgtttctgagcattgtttgataatatgtgatatgacatgtgcagACACTTCACCGTATGTTTATCATCAATGCCGGTTCTGGTTTTAAGCTACTTTGGGGCACGGTGAAATCGTTTCTTGATCCAAAGACTGTCTCCAAAATAC

upper sequence: GLYMA14G07850.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0001g12950.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------------------gtatgtgactttagtcataattattgtggta-gtttttaattcttcatggcttctggactt-attgttctggta-tctgttctaacctataaatgttt-ctgtgcagACATTATGTCGAATGTTTATAATCAATGCTGGTCCCGGTTTTAAGCTGCTTTGGAACACGGTGAAATCATTTCTTGATCCCAAAACTACTTCAAAGATAA
                                                   |  ||||  |  |  | ||||||  | |  |   |||| ||   |    ||||| |||| | |||| |  || ||  || |||| | ||||  |    | |||||||| | || | ||||||||| || ||||||||||| ||||||| |||||| |||||||| |||||  | ||||||||||| ||||| ||||| |||||  
gtatggagtttcaatgcttaacacccttatatgagtttatgataattgcacagttgaccctcatgttgattattaggatttggggttaaatcccaa----ttctgcacttgaatgttgtactactcccttataacatttaaacatcaattctgcagACACTTTGCCAAATGTTTATCATTAATGCTGGTCCAGGTTTTAGGCTGCTCTGGAACACCGTGAAGACTTTTCTTGATCCAAAAACAACTTCCAAGATTC

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|151403337|gb|EV273147.1|EV273147
EST:     GGGAACTCATCATGCGGCTGCAGAAAATTGATGGTGATTACTATCCAGAA                         ACATTATGTCGAATGTTTATAATCAATGCTGGTCCCGGTTTTAAGTTGCTT
genomic: GGGAACTCATCATGCGGCTGCAGAAAATTGATGGTGATTACTATCCAGAAgtatgtgact ... ttctgtgcagACATTATGTCGAATGTTTATAATCAATGCTGGTCCCGGTTTTAAGCTGCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttctggacttattgttctggtatctgttctaacctataaatgtttctgtgcagACATTATGTCGAATGTTTATAATCAATGCTGGTCCCGGTTTTAAGCTGCTTTGGAACACGGTGAAATCATTTCTTGATCCCAAAACTACTTCAAAGATAA
                            ttctaac  putative branch site (score: 1)
                                          tgtttct  putative PPT
                                    tataaatgttt  TA-rich tract