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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

taagataactaaatttcttataagaagaatccgtttctttctctttatgattaacatatactaatctcaaatcatatgtaataatgaaacatggttggctcatgcaggAAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACTGGTTTCCTTGTGTGTCTCCCATCTCGTCTTCTATCGGAGTTGATTCCTA

Basic information

species Glycine max
transcript GLYMA18G11630.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G11630.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0090g00110.t01 (Vitis vinifera), 3'ss of exon 3
taagataactaaatttcttataagaagaatccgtttctttctcttt-atgattaacatatactaatctcaaatcatat--gtaataatgaaacatggttggctcatgcaggAAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACTGGTTTCCTTGTGTGTCTCCCATCTCGTCTTCTATCGGAGTTGAT--TCCTA
                                ||    || || || || || ||    | ||||| |  | |   ||   |  | |||||||   ||||| | ||||||||||| ||||||||||||||| ||||  | | |||||||| ||| |||||||||||||| ||||  ||| |  ||   ||| || | |||| ||||  ||  |
--------------------------------gtaagattttcgttgatcatcaatcagtcctaatattcattttaattgatgctcatgaaactctgttgggtgatgcagGAAGGTCTTGCAATGATTGATAATGGTCACAGAGATGGCAAACGCCGGTACTGGTTTCCCTGTGCATCTTCACTC---TCTGCTGTAGGAGCTGATATTCTCA

upper sequence: GLYMA18G11630.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0090g00070.t01 (Vitis vinifera), 3'ss of exon 6
taagataactaaatttcttataagaagaatccgtttctttctctttatgattaacatatactaatctcaaatcatatgtaataatgaaacatggttggctcatgcaggAAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACTGGTTTCCTTGTGTGTCTCCCATCTCGTCTTCTATCGGAGTTGAT--TCCTA
                       | |  ||   ||  |   | | ||| | |   | ||| | || | || | ||      | |||||||   ||||| ||||||||||||| ||||||||||||||||||||  | | |||||||| ||| |||||||||||||| ||||  ||| |  ||   ||| || | |||| ||||  ||  |
-----------------------gtaagattt-ttgttgattatctatcagtccta-atattcattttaattgatgc----tgatgaaactctgttgggtcatgcagGAAGGTCTTGCAATGATTGATGATGGTCACAGAGATGGCAAACGCCGGTACTGGTTTCCCTGTGCATCTTCACTC---TCTGCTGTAGGAGCTGATATTCTCA
















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|58014690|gb|CX701432.1|CX701432
EST:     ATCTTGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTTGATG                         AAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACT
genomic: ATCTTGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTTGATGtaagataact ... ctcatgcaggAAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACT
EST: gi|58019358|gb|CX706100.1|CX706100
EST:     ATCTTGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTTGATG                         AAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACT
genomic: ATCTTGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTTGATGtaagataact ... ctcatgcaggAAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACT
EST: gi|58016320|gb|CX703062.1|CX703062
EST:     ATCTTGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTTGATG                         AAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACT
genomic: ATCTTGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTTGATGtaagataact ... ctcatgcaggAAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatatactaatctcaaatcatatgtaataatgaaacatggttggctcatgcaggAAGGACTTGCAATGATTGATGATGGCGATAAAGATGGCAGACGGCGGTACTGGTTTCCTTGTGTGTCTCCCATCTCGTCTTCTATCGGAGTTGATTCCTA
     tactaat  putative branch site (score: 1)
               aaatcatatgtaataa  TA-rich tract