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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaattaatggttttctttatgtctgctctcacgtttttgagcaatattctgcagattttgaaattatgcacaaataataatgttgtctcctgattgcaaaacattccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG

Basic information

species Glycine max
transcript GLYMA19G45130.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G45130.1 (Glycine max), 3'ss of exon 14
lower sequence: AT3G14350.3 (Arabidopsis thaliana), 3'ss of exon 15
gtgaattaatggttttctttatgtctgc-tctcacgtttttgagcaatattctgcagattttgaaattatgcaca-aataataatgttgtctcctgattgcaaaacattccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG
           ||  | ||    ||    || | ||  ||     || |   |     |  || || | ||  || |||   | |     ||  ||||||        |   ||||||| ||||| ||||||| || || || |||||  |||||||||||||||| || || || |||||||| ||||  |||||||||||||| ||  | ||||||
-----------gtacttttacaatccatatccctcgccttcctaaaaaaacttaagagtgatgcaaatgtgttcagaattgaagtaagtcctggtgattgttg-----tgtgtgacagCACAAGGTCAAGATCGGAACAATCATTGGTAAGATGGGCAACACCTCAGCTTCACGACATTGATGCTTTGGGCAAAATGGTTGATCCAGCTCTCAAAGGG

upper sequence: GLYMA19G45130.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G53730.1 (Arabidopsis thaliana), 3'ss of exon 14
gtgaattaatggttttctttatgtctgctctcacgtttttgagcaatattctgcagattttgaaattatgcacaaataataatgttgtctcctgattgcaaaacattccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG
                  | |  |||  | | |        ||   |  | |    | ||   || | ||      |   ||| ||  |  ||| ||  ||    ||  |   |||| ||||| ||||||||||||||||  ||||||||||||| ||||| ||||| || || |||||||| || || |||||||||||||| ||  | ||||||
-----------------gtaaactctattatgatccaaactaggcttgatgtatgtagttgagaaatgtgtttctgtttgaatctta-caactggttataa----tttga--gcagCACAAGGTCAAGATCTGAGCAGTCACTGGTTCGATGGGCGACACCACAACTTCACGACATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAAGGG

upper sequence: GLYMA19G45130.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G53730.2 (Arabidopsis thaliana), 3'ss of exon 14
gtgaattaatggttttctttatgtctgctctcacgtttttgagcaatattctgcagattttgaaattatgcacaaataataatgttgtctcctgattgcaaaacattccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG
                  | |  |||  | | |        ||   |  | |    | ||   || | ||      |   ||| ||  |  ||| ||  ||    ||  |   |||| ||||| ||||||||||||||||  ||||||||||||| ||||| ||||| || || |||||||| || || |||||||||||||| ||  | |||   
-----------------gtaaactctattatgatccaaactaggcttgatgtatgtagttgagaaatgtgtttctgtttgaatctta-caactggttataa----tttga--gCAGCACAAGGTCAAGATCTGAGCAGTCACTGGTTCGATGGGCGACACCACAACTTCACGACATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAA---

upper sequence: GLYMA19G45130.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 14
gtgaattaatggttttctttatgtctgctctcacgtttttgagcaatattctgcagattttgaaattatgcacaaataataatgttgtctcctgattgcaa----aacattccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG
     | ||    || |  ||       ||  | | ||        | || || |||       |       || |  ||  | |  |   || | |   |    ||||||   ||||||||| ||| | ||||||||||| ||||||||||||||||| || ||||| || ||||| || |||||  ||||||||||||||||||| ||| | ||||||
----gtaaaaatgttgcactactagccatccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactattatgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG

upper sequence: GLYMA19G45130.1 (Glycine max), 3'ss of exon 14
lower sequence: PP1S64_28V6.2 (Physcomitrella patens), 3'ss of exon 15
gtgaattaatggttttctttatgtctgctctcacgtttttgagcaatattctgcagattttgaaattatgcacaaataataatgttgtctcctgattgcaaaacattccatg-acagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG
            |  || | |  | |   || |    |||   |   | | |||   |||  |   ||| ||   ||||  ||||  |  ||||   |  || | ||  |    ||||||||| |||||||| |||||     |||| |||||||||||||| ||||| ||||||||||||||| | || | |||||| ||||| ||  |  | || 
----------catcctcgtaaaatataacctgatcactttttccggcactttgc---tttctatcctat-cagtcataagtatgtcctaacctg---gtgaacccttggacccgcagCTCAAGACCAAGATCCGAGCAAAACCTGGTGCGATGGGCAACACCACAACTGCATGATATTGATGCACTCGCAAGAATGGTGGATCCAGCGTTAGAGGGT

upper sequence: GLYMA19G45130.1 (Glycine max), 3'ss of exon 14
lower sequence: EFJ34030 (Selaginella moellendorffii), 3'ss of exon 4
gtgaattaatggttttctttatgtctgctctcacgtttttgagcaatattctgcagattttgaaattatgcacaaataataatgttgtctcctgattgcaaaacattccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG
                                          | ||  ||    || |||  |  ||||            |||||  |    | |    |    ||| ||  ||| |||||  |  | || ||||||||  ||||  ||||||| |||||||||||||| |||||||||||  || |||||||||| || |||||  ||||||| 
------------------------------------------gtaaggtttcctagttttcaaggttat------------atgtt-ccattagctaaagaggtgttctatt-cagTTCAAGAGCGCGCTCGGAGCAGTCGCTGGTGAGATGGGCCACACCTCAACTCCACGATATTGATGCGCTGTCTAAAATGGTGGACCCTGCGTTGAAAGGC

upper sequence: GLYMA19G45130.1 (Glycine max), 3'ss of exon 14
lower sequence: EFJ37538 (Selaginella moellendorffii), 3'ss of exon 13
gtgaattaatggttttctttatgtctgctctcacgtttttgagcaatattctgcagattttgaaattatgcacaaataataatgttgtctcctgattgcaaaacattccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG
                                          | ||  ||    || |||  |  ||||            |||||  |    | |    |    ||| ||  ||| |||||  || | || ||||||||  ||||  ||||||| |||||||||||||| |||||||||||  || |||||||||| || |||||  ||||||| 
------------------------------------------gtaaggtttcctagttttcaaggttat------------atgtt-ccattagctaaagaggtgttctatt-cagTTCAAGAGCACGCTCGGAGCAGTCGCTGGTGAGATGGGCCACACCTCAACTCCACGATATTGATGCGCTGTCTAAAATGGTGGACCCTGCGTTGAAAGGC

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|26268803|gb|CA819866.1|CA819866
EST:     TTTGGAGTCGTCATGTTGGAACTTCTCAGTGGACGGAACCCTTTTGATAG                         CTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACT
genomic: TTTGGAGTCGTCATGTTGGAACTTCTCAGTGGACGGAACCCTTTTGATAGgtgaattaat ... tccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACT
EST: gi|14008711|gb|BG725315.1|BG725315
EST:     TTTGGAGTCGTCATGTTGGAACTTCTCAGTGGACGGAACCCTTTTGATAG                         CTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACT
genomic: TTTGGAGTCGTCATGTTGGAACTTCTCAGTGGACGGAACCCTTTTGATAGgtgaattaat ... tccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACT
EST: gi|209698334|gb|BW678065.1|BW678065
EST:     TTGGGAGTCGTCATGTT-GAACTTCTCAGTGGACGGAACCCTTTTGATAG                         CTCAAGGCCAAGATGTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACT
genomic: TTTGGAGTCGTCATGTTGGAACTTCTCAGTGGACGGAACCCTTTTGATAGgtgaattaat ... tccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaattatgcacaaataataatgttgtctcctgattgcaaaacattccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG
                            tcctgat  putative branch site (score: 3)
          acaaataataatgtt  TA-rich tract