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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaacttacatcatgcttttgtttctatacaatgtgccacagcacaactgataatggaaactcccacatgtctgttgtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGCAACTTTGTTGTCTATGGCTCAGATT

Basic information

species Glycine max
transcript GLYMA11G07910.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G07910.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
--gtttgtaa-cttacatcatg-----cttttgtttctatacaatgtgccacagcacaactgataatggaaact--------cccacatgtctgttgtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGCAACTTTGTTGTCTATGGCTCAGATT
   ||| ||  ||||||  | |     ||   |||   |    ||||           ||| | ||||    ||         | |||| | | || |  || ||||| ||||  || ||||||||||| |||||||| ||||||||||||||| | ||||||||||| || || ||||| ||||||||| ||||||   | ||  
gtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG

upper sequence: GLYMA11G07910.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G51130.1 (Arabidopsis thaliana), 3'ss of exon 10
gtttgtaacttacatcatgcttttgtttctatacaatgtgccacagcacaactgataatggaaactcccacatgtctgttgtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGCAACTTTGTTGTCTATGGCTCAGATT
             |  |  ||  |           || ||   ||     ||   |  |  |      ||||  |||    | | | |||||||||||| | || ||||||||  | ||||||||||  || ||||||||||||||||| || ||||| ||||||||||||||  | |  |         
-----------gtaggaaactcatcaactagagttatatgttccattcgtacgttttcttta----ttcacaactctaccttttctgcagACTCACAAAGTTAAAAAGTTTGTTCTTCACACCAACTATCCGGGTCATGCTGATTTCAACTCATACATAAAGTGCAACTTTGTGATTTCGG---------

upper sequence: GLYMA11G07910.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 10
-----------gtttgtaacttacatcatgcttttgtttctata-caatgtgccacagcacaactgataatggaaactcccacatgtctgt--tgtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGCAACTTTGTTGTCTATGGCTCAGATT
             ||||   | | |  ||  | ||  ||| |||  | |||||      |  |  |    || ||  || || ||   |||  || |||| |||||||| ||||||||||| ||||| || ||||| ||||  ||||| ||||| ||||| ||||| ||||| || |||||||||||| ||||||| || ||||
gtactcctttttattgtgtgtcaaaatata-tattacttcaataatattgtgcatatatatcatcgtacttgaaagttctcagattattgtattggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCAGATTTTAATTCATACATGAAATGCAACTTTGTTATCTATGGTTCTGATT

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|120533498|gb|EH261631.1|EH261631
EST:     ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAG                         ACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
genomic: ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAGgtttgtaact ... gtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
EST: gi|254331133|gb|GR843252.1|GR843252
EST:     ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAG                         ACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
genomic: ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAGgtttgtaact ... gtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
EST: gi|192324841|gb|FK015352.1|FK015352
EST:     ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAG                         ACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
genomic: ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAGgtttgtaact ... gtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
EST: gi|51343377|gb|CO984110.1|CO984110
EST:     ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAG                         ACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
genomic: ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAGgtttgtaact ... gtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
EST: gi|208154342|gb|GD955395.1|GD955395
EST:     CTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAG                         ACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
genomic: CTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAGgtttgtaact ... gtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
EST: gi|254331134|gb|GR843253.1|GR843253
EST:     ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAG                         ACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
genomic: ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAGgtttgtaact ... gtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
EST: gi|120533133|gb|EH261266.1|EH261266
EST:     ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAG                         ACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT
genomic: ACTTTTATAATTATTTTACTCGTGGTCTGGACATATTATTTGATGGACAGgtttgtaact ... gtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtgccacagcacaactgataatggaaactcccacatgtctgttgtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGCAACTTTGTTGTCTATGGCTCAGATT
              aactgat  putative branch site (score: 3)
                                              tattttc  putative PPT
                                           ttgtatttt  TA-rich tract