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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttgctttaatatatgtcaactgtaggagtgatgtaactttggtggtttattcagttctcctttatcttataatacgtgtccatgttagctactagcactgtaatgggttgtttatattatgcttacctttttaaaatatgcagGTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTTTCAACTGTACCACTAAGGGATGAGTTCCTTGAAAATGCTAGGCTATTTA

Basic information

species Glycine max
transcript GLYMA02G33770.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G33770.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G151549_T02 (Zea mays), 3'ss of exon 4
gtaagcttgctttaatatatgtcaactgtaggagtgatgtaactttggtggtttattcagttctcctttatc-ttataatacgtgtccatgttagctactagcactgtaatgggttgtttatattatgcttacctttttaaaatatgcagGTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTTTCAACTGTACCACTAAGGGATGAGTTCCTTGAAAATGCTAGGCTATTTA
                                  ||   | ||     || |     || |   |  | ||  || | ||| |     |   | | || | | ||   |    |||||       |||  ||| ||| ||         ||| || || |||||||| ||||| || ||  |  |||||||  | || |||   | ||| ||  | || |||||||||||||||||||||||||| ||||
----------------------------------tgccatgacaaccatgatcctaacaatcagcaataataattgtgatatgatataaaacttgttaat-gtacatcatcatgttgta------atgtctacttttcta---------gGTTATACTGAATGATCCATTCCTGGGAAAGCGCATTGAAGAGGGAAATTTTGTCAGTGTTCCTTTGAGAGATGAGTTCCTTGAAAATGCTAGGCTTTTTA

upper sequence: GLYMA02G33770.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G57290.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagcttgctttaatatatgtcaactgtaggagtgatgtaactttggtggtttattcagttctcctttatcttata-atacgtgtccatgttagctactagcactgtaatgggttgtttatattatgcttacctttttaaaatatgcagGTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTTTCAACTGTACCACTAAGGGATGAGTTCCTTGAAAATGCTAGGCTATTTA
                                                                    || || ||  | | || |  || ||   |  | |  | | | || |   |  ||| | ||   || |||| | |  ||| |||| ||| | |||||||| |||||||||||  ||||||| ||  | |||||||||||||||||||| || ||||| || |||||||||||  | |||||  
-------------------------------------------------------------------gtaactcatccacatgtatagatattt-ttgtttgtgcagaactgtgcaatcaatactctg---acattttaacatgatgtagGTCATTGTGAATGATCCATTCCTTGGCAAGCGAGTTGAGGATGGAAACTTTTCAACTGTACCACTGAGAGATGAATTTCTTGAAAATGCCCGCCTATTCG

upper sequence: GLYMA02G33770.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0252g00070.t01 (Vitis vinifera), 3'ss of exon 5
gtaagcttgctttaatatatgtcaactgtaggagtgatgtaactttggtggtttattcagttctcctttatcttataatacgtgtccatgttagctactagcactgtaatgggttgtttatattatgcttacctttttaaaatatgcagGTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTTTCAACTGTACCACTAAGGGATGAGTTCCTTGAAAATGCTAGGCTATTTA
                                       |||| ||  | ||  | |  | |   | ||    ||||      |||  || ||  |    |||   |  ||  |   ||||  |   | ||   |||||    ||| |||| ||| | |||||||| || ||||||||| | ||||||||| | | |||||| ||||| ||| | ||||||||||| || ||||||||  |||| ||||
--------------------------------------ttaacatt--ttgtacaattggataatcattggactatagcttaagtc--tgatatttcaatgcatcct--tgcatcaattatgatg-acatattatttta----atgtagGTAATTTTAAATGATCCATTTCTTGGCAAACGTGTTGAAGAAGGAAGCTTTTCTACTGTGCCATTGAGGGATGAGTTTCTCGAAAATGCCCGGCTTTTTA

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|209708048|gb|BW657090.1|BW657090
EST:     TCAACTATGATTTTGATGGCGCACAAAAGAAGATGAGGGAATGTGAAGAA                         GTGATTCTCAA
genomic: TCAACTATGATTTTGATGGGGCACAAAAGAAGATGAGGGAATGTGAAGAAgtaagcttgc ... aaatatgcagGTGATTCTCAA
EST: gi|151408544|gb|EV278352.1|EV278352
EST:     TCAACTATGATTTTGATGGGGCACAAAAGAAGATGAGGGAATGTGAAGAA                         GTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTT
genomic: TCAACTATGATTTTGATGGGGCACAAAAGAAGATGAGGGAATGTGAAGAAgtaagcttgc ... aaatatgcagGTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTT
EST: gi|57575424|gb|CX548399.1|CX548399
EST:     TCAACTATGATTTTGATGGGGCACAAAAGAAGATGAGGGAATGTGAAGAA                         GTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTT
genomic: TCAACTATGATTTTGATGGGGCACAAAAGAAGATGAGGGAATGTGAAGAAgtaagcttgc ... aaatatgcagGTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTT
EST: gi|193530321|gb|FK483720.1|FK483720
EST:     TCAACTATGATTTTGATGGGGCACAAAAGAAGATGAGGGAATGTGAAGAA                         GTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTT
genomic: TCAACTATGATTTTGATGGGGCACAAAAGAAGATGAGGGAATGTGAAGAAgtaagcttgc ... aaatatgcagGTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctactagcactgtaatgggttgtttatattatgcttacctttttaaaatatgcagGTGATTCTCAATGATCCCTTCCTTGGCAAAAGAGTTGAAGAAAGCAACTTTTCAACTGTACCACTAAGGGATGAGTTCCTTGAAAATGCTAGGCTATTTA
                               tgcttac  putative branch site (score: 2)
                      tttatattatgcttac  TA-rich tract