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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatgaaccacagcatcaaaaccctaatctaatcctccccctccataaacaaagtcagtgttgttttatgtgcagAAATGGTGTAAAGCTTGTGTTCTGCTTGATGGACTGAATAGAGGTTTGCCTAAACTGGGGATTGGACGAAGTCGTGGCAGTGTTGCTTCTGATAATGGAA

Basic information

species Glycine max
transcript GLYMA04G00350.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G00350.2 (Glycine max), 3'ss of exon 2
lower sequence: AT2G44270.1 (Arabidopsis thaliana), 3'ss of exon 9
---gtatatatgaaccacagcatcaa--aaccctaatctaatcctccccctccataaacaaagtcag--tgtt---gtt-----ttatgtgcagAAATGGTGTAAAGCTTGTGTTCTGCTTGATGGACTGAATAGAGGTTTGCCTAAACTGGGGATTGGACGAAGTCGTGGCAGTGTTGCTTCTGATAATGGAA
     |  | |     |   ||||||  ||      |   ||  |     |   || | |  ||  |  ||||    ||     | || |||||||||||||||||||||||||| |||| || ||||||||  | |||||||||||  |||| |||||| ||  ||| |||     || |  | |||||    
gtgagacctctcttttatcacatcaagtaaattgttttccataattagagttagtatatagtgtttgattgtttggattacaaatgatatgcagAAATGGTGTAAAGCTTGTGTTTTGCTGGAAGGACTGAACCGTGGTTTGCCTAAGATGGGTATTGGAAGACCTCGAGGCGTAAATGGTGATCATAATAAGG

upper sequence: GLYMA04G00350.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g00440.t01 (Vitis vinifera), 3'ss of exon 9
-----------------------gtatatatgaaccacagcatcaaaaccctaatctaatcctccccctccataaacaaagtcagtgttgttttatgtgcagAAATGGTGTAAAGCTTGTGTTCTGCTTGATGGACTGAATAGAGGTTTGCCTAAACTGGGGATTGGACGAAGTCGTGGC---AGTGTTGCTTCTGATAATGGAA
                        ||   ||||     |||||  ||     | |  |  | |         | || |   |   || | || ||| |||||||||||||||||||||||||| |||| || ||| ||||  | |||||||| ||  |||| ||||| || | ||| |||   | |  || |  |||    |   
acctacccttctgaatagttgggataaggatgatttg-agcatttaagttgaattagacacattgatgcatcttaatattatagatggt-ttatatctgcagAAATGGTGTAAAGCTTGTGTTTTGCTGGAAGGATTGAACCGCGGTTTGCCAAAGTTGGGTATTGGGCGGACTCGAGGCCTCAATAATGGTCTTGAGTGCG---

upper sequence: GLYMA04G00350.2 (Glycine max), 3'ss of exon 2
lower sequence: PP1S54_267V6.1 (Physcomitrella patens), 3'ss of exon 8
---------------------------------------------------------------------------------------------gtatat-atgaaccacagcatcaaaaccct--aatctaatcctccccctccataaacaaagtca-----gtgttgtttt---atgtgcagAAATGGTGTAAAGCTTGTGTTCTGCTTGATGGACTGAATAGAGGTTTGCCTAAACTGGGGATTGGACGAAGTCGTGGCAGTGTTGCTTCTGATAATGGAA
                                                                                             |||| | | |       |  |    |   |  | | || |  |        ||   ||   |||     | | || ||    |||||||||||||||| || |||||||||||||||||||| || ||| | || ||||| ||  |||| |||   ||||  || ||||  |      |  ||  ||   
gtaaactttcaaaagacccgtagaaaacccaacacgctttctgctgaaaacgatgagtttttgtttggaagattttttgagttgcccagatgggtatgtcacgtgttgtgggcttgggattttgcattttattagtttgaagttatgtccaggctcatcttcgagctgattatgaatgtgcagAAATGGTGCAAGGCTTGTGTTCTGCTTGATGGTCTAAATCGTGGATTGCCCAAGTTGGGCATTACTCGAACACGAGGCAAGGGCTTGGCAAATGGTGTTG

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|193561269|gb|FK520278.1|FK520278
EST:     GATGCCAGAGCAGGGAACATAGCGAACGCTGCGGTTATATTTCTAGTCAG                         AAATGGTGTAAAGCTTGTGTTCTGCTTGATGGACTGAATAGAGGTTTGCCT
genomic: GATGCCAGAGCAGGGAACAT-GCGAACGCTGCGGTTATATTTCTAGTCAGgtatatatga ... ttatgtgcagAAATGGTGTAAAGCTTGTGTTCTGCTTGATGGACTGAATAGAGGTTTGCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accctaatctaatcctccccctccataaacaaagtcagtgttgttttatgtgcagAAATGGTGTAAAGCTTGTGTTCTGCTTGATGGACTGAATAGAGGTTTGCCTAAACTGGGGATTGGACGAAGTCGTGGCAGTGTTGCTTCTGATAATGGAA
      atctaat  putative branch site (score: 3)
                                        ttgtttt  putative PPT
                        ataaacaaa  TA-rich tract