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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggatttggcagaaatttttataattgaaaaagaaaaaaatgattgttcttttctttgtcggtgcttcatgttttcttgtactagtttgttaagttgtaactgtttttcattcatgtatgtgtctttttcctgcagGTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGTGGATAAACCACTGCTCTACTTTGACAACAACTTGATAGGGACAATCGTT

Basic information

species Glycine max
transcript GLYMA05G36850.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G10960.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggatttggcagaaatttttataattgaaaaagaaaaaaatgattgtt------cttttctttgtcggtgc---ttcatgttttcttgtactagtttgttaagttgtaactgtttttcattcatgtatgtgtctttttcctgcagGTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGTGGATAAACCACTGCTCTACTTTGACAACAACTTGATAGGGACAATCGTT
                      ||| ||||| ||| ||| |||   |  ||      |||  |||| ||  |     |   || |      || || |  ||| | |  | | || ||      | || |  | |  || |  | |||||||||||| ||||||||||||||||| ||||| ||||| ||||| || || || || ||  |||| || | | | || ||  |  | || || ||   |
---------------------gtatgattgagaaaaaaacaaacattcttttagcttcttcactttatcactaacaatgagtgataatgcatattattgggtttattctttattgattgatgaacgtggaattattattattttacagGTTTGATGCAGTGATACATTTTGCTGGACTTAAAGCAGTTGGTGAGAGTGTAGAGAAGCCTTTGCTTTATTATAATAATAATCTTGTTGGTACTATTACT

upper sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G23920.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggatttggcagaaatttttataattgaaaaagaaaaaaatgattgttcttttctttgtcggtgcttcatgttttcttgtactagtttgttaagttgtaactgtttttcattcatgtatgtgtctttttcctgcagGTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGTGGATAAACCACTGCTCTACTTTGACAACAACTTGATAGGGACAATCGTT
                                   | |||||| |      ||||||||| |   || ||    | ||  | ||     |||    || | |  |         | ||| |   ||    ||     ||||||||||| |||||||| |||||||| ||||| ||||| ||||| || ||||| || ||  ||||||| | | | || ||| |  | || ||  |   |
-----------------------------------gtaaaaaaag------cttttcttt-tttatgattaggctgttgatataa----ttgaggggtcgaagtt---------taatggaaacgtggaattatgatagGTTTGATGCAGTGATACACTTTGCTGGACTTAAAGCAGTAGGTGAGAGTGTGGAGAAGCCTTTGCTCTATTATAATAATAACATTGTTGGCACTGTTACT

upper sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 2
gtaaggatttggcagaaatttttataattgaaaaagaaaaaaatgattgttcttttctttgtcggtgcttcatgttttcttgtactagtttgttaagttgtaactgtttttcattcatgtatgtgtctttttcctgcagGTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGTGGATAAACCACTGCTCTACTTTGACAACAACTTGATAGGGACAATCGTT
                              | | |   || |||   | |  | ||    ||  |   ||  ||  | ||||  | | ||| |    || ||||| |  ||  | ||  |     | |||   |||||| ||||||||||| || || ||||||||| | |||||||| |||||||| ||| | |||||  |||| |||||||| |||||| | || || |||||   |
------------------------------acagactgaagaatagatttgatgttacacgt-agaaatttgtgcat-cttgctcaactttat-gttttataact-tactttgtccacct-----tgtttccactgcagTTTTGATGCTGTCATTCACTTTGCTGGGTTGAAGGCAGTTGGTGAAAGTGTGCAAAAACCCTTGCTTTACTTTGATAACAACCTTATTGGCACAATTACT

upper sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 3'ss of exon 2
gtaaggatttggcagaaatttttataattgaaaaagaaaaaaatgattgttcttttctttgtcggtgcttcatgttttcttgtactagtttgttaagttgtaactgtttttcattcatgtatgtgtctttttc-ctgcagGTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGTGGATAAACCACTGCTCTACTTTGACAACAACTTGATAGGGACAATCGTT
                                      || |||   | |  | ||   |||  |   || ||| || ||||  | | ||| |    || ||||| ||| | | |  |||     |  ||| | |||||| ||||||||||| || || ||||||||| | |||||||| |||||||| ||| | |||||| |||| |||| ||| |||||| | || || |||||   |
------------------------------------tgaagaatagatttgatgttacatgt-agaaatttatgctt-cttgctcaactttat-gttttataactctttcttactt-tgtccaccttgtttccactgcagTTTTGATGCTGTCATTCACTTTGCTGGGTTGAAGGCAGTTGGTGAAAGTGTGCAAAAACCATTGCTTTACTATGATAACAACCTTATTGGCACAATTACT

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|192298481|gb|FG989187.1|FG989187
EST:     CTAGACTTGCGGGACAGAGCTGCCCTCGAGAAAATATTTTCAACCAATAA                         GTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGT
genomic: CTAGACTTGCGGGACAGAGCTGCCCTCGAGAAAATATTTTCAACCAATAAgtaaggattt ... tttcctgcagGTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGT
EST: gi|17022675|gb|BM093709.1|BM093709
EST:     CTAGACTTGCGGGACAGAGCTGCCCTCGAGAAAATATTTTCAACCAATAA                         GTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGT
genomic: CTAGACTTGCGGGACAGAGCTGCCCTCGAGAAAATATTTTCAACCAATAAgtaaggattt ... tttcctgcagGTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagtttgttaagttgtaactgtttttcattcatgtatgtgtctttttcctgcagGTTTGATGCTGTGATACATTTTGCTGGGCTTAAGGCAGTGGGTGAAAGCGTGGATAAACCACTGCTCTACTTTGACAACAACTTGATAGGGACAATCGTT
             ttgtaac  putative branch site (score: 2)
                                     tgtgtctttttcct  putative PPT
                      tttttcatt  TA-rich tract