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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttctcttcctctttttttgcttgtttgactgcttttctttcagtcctttaatatggcaactactaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACTGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA

Basic information

species Glycine max
transcript GLYMA08G15380.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 1
gtaagttttctcttcctctttttttgctt-gtttgactg-cttttctttcagtcctttaatatggcaactactaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACTGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||| || |    |   |   || |  |||  | |||  | | ||      |||  | | |    |   || |    ||  |   |     |||||||||||||||||  | |||||||| ||||| ||||||||||| || ||||| ||||||||||||||  | ||  | ||||| |||||||| ||  |  
gtatgtatggcatgaattcattctaactttatctgaaagacattgaagatagtattctgaacaagtttctgcattatctacttctctttgcagATTAACATGAAAGGTCTTGATGGGATCCAAGGACCAATATATGTTGGGACTGGTTGTGTTTTCAGAAGACATGCTTTGTATGGTTATGATGCCCCAACTG

upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G39350.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagttttctcttcctcttt-ttttgcttgtttgactgcttttctttcagtcctttaatatggcaactactaactccccaat-tgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACTGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||| || | ||  ||   |||  |||| || | |   || |||  |     |||| |  | |  ||  |  ||         | || ||||||||||||||||||||  | |||||||||||||| || ||||||||||| || || ||||| || |||||  | || |||||||| | |||||||||    |
gtatgtgtccttatctcttttgctttgtttctgtttatgttttagtgcttttcctct--tttctcatttgatattgttttggtgtggaaacagATTAACATGAAAGGTCTTGATGGGATACAAGGACCGATATATGTCGGGACAGGTTGTGTGTTTAGAAGACAGGCTCTTTATGGTTTTGATGCACCAAAGA

upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G09870.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagttttctcttcctctttttttgcttgtttgactgcttttctttcagtcctttaatatggcaa-ctactaactccccaattg--aaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACTGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||||||   | | | |||| |     | |  ||  ||    || ||    | || | |  |  |||  |  | |     ||||||   ||||||||||| |||||||| ||||||||  ||||||| || ||||| || ||||| || |||||||| || ||  | ||||||||||||| |||||| ||    |
gtaagtacac-cattctctatcaccacatccttttcttgagttattcatctgctcttacttaccaaatttttgatcttgcaattgtcgaaacagATTAATATGAAAGGTTTGGATGGATTACAAGGGCCTATATACGTGGGAACCGGGTGTGTTTTTAGGAGACAAGCACTTTATGGATTTGATGCGCCAAAAA

upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G64740.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagttttctcttcctctttttttgcttgtttgactgcttttctttcag--tcctttaatatggcaactactaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACTGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||||||     |  |   ||      | | ||  |   |||||  || ||  | || ||  ||  |||||| | | ||   | ||    |||||| || |||||||| ||||||||| ||||||| || ||||| ||||| || || ||||||||||| ||| | || ||||| |||| |||||||||    |
gtaagtacagccaccacttt------cctattgtatccctttttcttgagatttctgtagaataccaactaatgaatctttattt----acagATCAATATGAAAGGTTTGGATGGGCTACAAGGGCCTATATACGTCGGTACAGGTTGTGTTTTCAGGAGGCAAGCGCTTTACGGATTTGATGCACCGAAGA

upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G21770.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagttttctcttcctctttttttgcttgtttgactgcttttctttcagtcctttaatatggcaactactaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACTGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||| | |||| | |    ||| | |    |||   ||  || | || |||  |  |  |      | |  |  |||    |||  |||||||| ||||||||||| || ||||| |||||||| || |||||||| || || || ||||| ||||||||| | ||||||||||||| |||||||||    |
gtatgatttc-catggaatttgtctttgcgttgttctatttatgttacagctcccttctc-----attggtgtctctatgattataaacagATCAACATGAAAGGTTTAGATGGCATACAAGGACCGATATATGTGGGGACCGGGTGTGTCTTCAGAAGGCAAGCACTTTATGGATTTGATGCACCAAAGA

upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 10
gtaagttttctcttcctctttttttgcttgtttgactgcttttctttcagtcctttaatatggcaactactaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACTGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
      | | | | ||| ||| ||| ||| |||  |   || |  ||   || | ||  || |  |   || | |   ||||||||| ||||||||||||| ||| || ||||| |||||||| || |||||||| ||||| || ||||| ||||||||| | ||||||||||| |||||||| |||| ||
-----gtatgtatacctttttcttttcttttttttccctttattgtt---tcttatatcattgggaaagctgatttttcaattgaaa-cagATTAACATGAGAGGCTTAGATGGTATACAAGGACCGATATATGTTGGAACCGGTTGTGTCTTCAGAAGGCAAGCACTTTATGGTTATGATGCTCCTGTCA

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|208034816|gb|GD834264.1|GD834264
EST:     GAATTGATAGACATGATAGATATTCAAACAGAAATGTGGTATTTTTCGAT                         ATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACG
genomic: GAATTGATAGACATGATAGATATTCAAACAGAAATGTTGTATTTTTCGATgtaagttttc ... ttgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttttctttcagtcctttaatatggcaactactaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACTGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
                               tactaac  putative branch site (score: 0)
                 tttaatat  TA-rich tract