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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttgtgtatcccctttttatacatgtccctataattagattaataaaaaaatgtgttagaattttgcagGATGGTAATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTCA

Basic information

species Glycine max
transcript GLYMA03G01300.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 5
gtaagt-ttttgtgtatcccctttttatacatgtcc--ctataattagattaataaaaaaatg-tgttagaattttgcagGATGGTAATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTCA
|| ||| |  |||| ||    |||||  |||||  |  |  |   |    ||| | |   ||| |||    ||  | |||||  |||| ||||| |||||  |||| ||||| ||||| || ||| ||||||| |||||||| || || |||||||||||||| |||||||| ||  | |
gtgagtatcgtgtg-atttgttttttcaacatgatcagcagtgggttctgtaacacagttatgctgtctatatactacagGACTGTAACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGA

upper sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G01740.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagtttttg--tgtatccccttttta------tacatgtccctata-attagattaataaaaaaatgtgtta--gaattttgc--agGATGGTAATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTCA
|||| |  ||    | | | | | |          |  | |   | ||   || |||     |  |||| |||   |||| ||    ||||  ||||||| || ||||| |  |||||  | ||||| |||||  |||||||||||||||||||||||||| | || |||||||| || ||||||||  
gtaattacttaaacgcaactcttgtccgggaaaccatgttttgttttatgctatattcccccactaatgcgtttatgaatctttataagGAATGTAATCCAAGACTTTCAACATTTGGGTTAATGAAGAATAGTCGGGATGGGAAAAGTTATAGCACAAATCTTGCTTTTACCCCACCTGAGTATCTAC

upper sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtttttgtgtatcccctt-------------tttatacatgtcc--ctataattagattaataaaaaaatgtgttagaattttgcagGATGGTAATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTCA
|||| | ||| |  || |||||             ||| | | |||     | ||  |  |||  |  |   ||||  ||||||||||||||||||||||||||| || ||  | ||||| || ||||||||||| |||||||| ||||||||||| || ||| |||| ||||| ||||| |||||| | |
gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA

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|151409998|gb|EV279806.1|EV279806
EST:     GGCGTGCTCTCTATCATGACCTTAATGCATATAGAGTTCTTTTTGATGAG                         GATGGTAATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGAT
genomic: GGCGTGCTCTCTATCATGACCTTAATGCATATAGAGTTCTTTTTGATGAGgtaagttttt ... aattttgcagGATGGTAATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttatacatgtccctataattagattaataaaaaaatgtgttagaattttgcagGATGGTAATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTCA
                       gattaat  putative branch site (score: 3)
               tataattagattaata  TA-rich tract