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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtggtctctctttaacatgaaggtccatgtgtgattgtaactgttgtattttcccccctaattcatgtgtcagaccatcaagataattatctaatttttgaggagatactaacaactcctttggcttcctatcaatttccaaacagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCCACACCTCTGCCAAATCCACCACCTTTGGCACCTCTTCCTGTAGTTGCTCCTG

Basic information

species Glycine max
transcript GLYMA18G47910.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G47910.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0023g00800.t01 (Vitis vinifera), 3'ss of exon 5
gttagtggtctctcttta-acatgaaggtc-catgt-gtgattgtaactgttgtatt-ttcccccctaattcatgtgtcagaccatcaagataa--------ttatctaatttttgaggagatactaacaactcctttggcttcctatcaatttccaa--acagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCCACACCTCTGCCAAATCCACCACCTTTGGCACCTCTTCCTGTAGTTGCTCCTG
|| | || | | | || | |||| ||  |  |||||  |  |||  |   | || || ||      || | |   | |  ||  | ||   |          || || | |   |||  |     |   | ||| | ||  || | | |  ||||  |  | |||||||||||||| | |||||||||||||| ||||| || ||||| |||  ||| || ||||| || || || ||||||||  | || ||| |||||||||
gtaattgttgtttgttgagacattaaattggcatgtcattgttgatatattagtgttgtttagttatagtgccattttttgataagcagtctgtacttccttttttccattccatgattaagattttgaatctcatatgtgttgcaaaccttttcttatgatagTCTATGCTTCTTCTGGATGCCTTCAACAAGGATAGAGCGTCTTTACCCCAACCCCTTCCAAACCCGCCCCCATTGGCACCCTTGCCAGTACTTGCTCCTG
















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|10847913|gb|BF071644.1|BF071644
EST:     GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAG                         TCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCCACA
genomic: GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAGgttagtggtc ... ttccaaacagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCCACA
EST: gi|192296271|gb|FG989063.1|FG989063
EST:     GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAG                         TCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCCACA
genomic: GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAGgttagtggtc ... ttccaaacagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCCACA
EST: gi|193710628|gb|FK647722.1|FK647722
EST:     GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAG                         TCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCTACA
genomic: GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAGgttagtggtc ... ttccaaacagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCCACA
EST: gi|208102867|gb|GD901402.1|GD901402
EST:     GCGGACAAGCAG                         TCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCTACA
genomic: GCGGACAAGCAGgttagtggtc ... ttccaaacagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttttgaggagatactaacaactcctttggcttcctatcaatttccaaacagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCCACACCTCTGCCAAATCCACCACCTTTGGCACCTCTTCCTGTAGTTGCTCCTG
               tactaac  putative branch site (score: 0)
                                            tttcc  putative PPT
                                      tatcaattt  TA-rich tract