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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgtatgctgtttaattacttcattaaagtttagaattttgcctattgagcttctgatgtttccaaatatttttttaatgtgaatcatctttcatgcttgttccttttgtctttccctttattcttattatttactaatgaacctgctggatatcctcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTTCACATTCAGCAG

Basic information

species Glycine max
transcript GLYMA20G28420.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28420.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G094255_T01 (Zea mays), 3'ss of exon 5
gtagtgtatgctgtttaattacttcattaaagtttagaattttgcctattgagcttctgatgtttccaaatatttt-tttaatgtgaatcatctttcatgcttgttccttttgtctttccctttattcttattatttactaatgaacct-gctggatatcctcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTTCACATTCAGCAG
                                                                  ||   ||||| || | ||| |||     | ||  | | |     ||||     |||  | |    | | ||||  |  |   |   |   |    |   |   || |||| ||||| |||||||||||  |||||||||| ||||| ||||| |||||||| |  |||
------------------------------------------------------------------cagtcattttgttcattgtcaat-gcgatgcagccctttctgcattgtaaactcctgcagt----taacttacagaaaagtttcatttattcgttttggtcccagCTGGTTGAGCACTTCTTCCAATCTGTGGTGAACACATCTGGGATGACTCTTCACATCCGTCAG

upper sequence: GLYMA20G28420.2 (Glycine max), 3'ss of exon 5
lower sequence: AT3G22425.2 (Arabidopsis thaliana), 3'ss of exon 5
gtagtgtatgctgtttaattacttcattaaagtttagaattttgcctattgagcttctgatgtttccaaatatttttttaatgtgaatcatctttcatgcttgttccttttgtctttccctttattcttatt--atttactaatgaac-ctgctggatatcctcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTTCACATTCAGCAG
                                                             |||  |   |   |  |  |  ||  || |||||   | || |   | || |   |   ||  |  | |||  |  |  |    ||   || |  |  |    |||| |||||||||||||| || ||||| ||  ||||||| || ||||||||||| |||||||| | ||||
-------------------------------------------------------------gttctctctttgctcctggaattg--tcttcttttgggtttatctgtgttattcgttgtttagtaatcattgaaagtgttgccaaaaattgtttaacctttcgatttgtagTTGGTGGAGCACTTTTTCCAGTCGTTGGTGAATACTTCTGGTATGACTCTTCACATCCGGCAG

upper sequence: GLYMA20G28420.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G14910.1 (Arabidopsis thaliana), 3'ss of exon 5
gtagtgtatgctgtttaattacttcattaaagtttagaattttgcctattgagcttctgatgtttccaaatatttttttaatgtgaatcatctttcatgcttgttccttttgtctttccctttattcttattatttactaatga-acctgctggatatcctcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTTCACATTCAGCAG
                                                                          || || |  |  |  || ||     |  |||  ||| |  ||| |   | || |  || |||  |||    ||    ||  | |  ||   | ||||||||||| || |||||||| ||  ||||||| || ||||||||||| |||||||| |  |||
-------------------------------------------------------------------------gttcttcacatttagtattttagtatccagtt--tttcggtttttctagtgttttctttgtttgttaaaatcactaaatgactcttttcccatttagTTGGTGGAACACTTCTTCCAGTCATTGGTGAATACTTCTGGTATGACTCTTCACATCCGACAG

upper sequence: GLYMA20G28420.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0020g03430.t01 (Vitis vinifera), 3'ss of exon 5
gtagtgtatgctgtttaattacttcattaaagtttagaattttgcctattgagcttctgatgtttccaaatatttttttaatgtgaatcatctttcatgcttgttccttttgtctt-tccctttattcttattattta-ctaatgaacctgctggatatcc-tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTTCACATTCAGCAG
                                                                            | |||    ||||||   | ||  | | |  |    |||  |   ||||| ||| | ||||| |||||||| ||  | ||| |   |||| | |||||||||||||| || ||||| ||  ||||||| || || || ||||||||||||||||  |||
------------------------------------------------------------------------gacatctaaaaaaaatcatacctaatcttaggtattggattctcatttgtttatccttttaatttatctaatgaaactcattgatttttatcatatttagTTGGTGGAGCACTTTTTCCAGTCTTTGGTGAATACTTCAGGCATGACACTTCACATTCGACAG

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|254323948|gb|GR836180.1|GR836180
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
EST: gi|120496152|gb|EH224319.1|EH224319
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
EST: gi|192298863|gb|FG987608.1|FG987608
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
EST: gi|58021912|gb|CX708653.1|CX708653
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
EST: gi|16278546|gb|BI942961.1|BI942961
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
EST: gi|120528942|gb|EH257076.1|EH257076
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
EST: gi|16278135|gb|BI942744.1|BI942744
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
EST: gi|151393539|gb|EV263414.1|EV263414
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
EST: gi|12691429|gb|BG157765.1|BG157765
EST:     ATAATTNTG-ACATACCCACTCAAAAGGGTTGG-ACATATGATACTCAAG                         TTG-TGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTTGTATGACACT
genomic: ATAATT-TGGACATACCCACTCAGA-GGGTTGGGACATATGATACTCA-Ggtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACT
EST: gi|16105448|gb|BI893188.1|BI893188
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
EST: gi|192295567|gb|FG988141.1|FG988141
EST:     GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAG                         TTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT
genomic: GTTATAATTTGGACATACCCACTCAGAGGGTTGGGACATATGATACTCAGgtagtgtatg ... tcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttccctttattcttattatttactaatgaacctgctggatatcctcatttatagTTGGTGGAGCATTTCTTCCAATCCCTGGTGAACACGTCTGGTATGACACTTCACATTCAGCAG
                     tactaat  putative branch site (score: 1)
                                          tcctcattt  putative PPT
      tttattcttattattt  TA-rich tract