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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGAGGAAAACAGCCCCAGTATTTCAAGAGTGCATTTTTAGGATACACTGTTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggatctgtagttaatttttattaattttttttctcttgatattttttagtggaaggggattttaactgtaatatcaaattcactactaatattagctggttgagcatgtgaacatgccatggttttttgaggattgatcttcgctattaagtattaacttcttttccttttatctttgtttcag

Basic information

species Glycine max
transcript GLYMA14G21190.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G21190.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g36070.2 (Oryza sativa), 5'ss of exon 10
TAGAGGAAAACAGCCCCAGTATTTCAAGAGTGCATTTTTAGGATACACTGTTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggatctgtagttaatttttattaattttttttctcttgatattttttagtggaaggggattttaactgtaatatcaaattcactactaatattagctggttgagcatgtgaacatgccatggttttttgaggattgatcttcgctattaagtattaacttcttttccttttatctttgtttcag
 |||||||   ||  ||  ||||| || ||||||||||| || || || || ||  ||    | ||||| || ||||||||||||||||||||||| ||||||| |     |       ||| |    |   | ||  |||||  | |||   |  ||||   |   | |     |   |    |  ||   | || |||                                                                                          
AAGAGGAATTAAGAACCGCTATTTTAATAGTGCATTTTTGGGTTATACCGTGGGTCTGACTGTGACAATAATAGTGATGAACTGGTTCCAAGCTGCACAGgtgagttctgttactaaggattctcgccatcgtgttgcctctt--tttttcccaagggaaacag---tgagggagagcctactgtatacagattattttaaacaa-------------------------------------------------------------------------------------

upper sequence: GLYMA14G21190.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G150251_T02 (Zea mays), 5'ss of exon 10
TAGAGGAAAACAGCCCCAGTATTTCAAGAGTGCATTTTTAGGATACACTGTTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggatctgtagttaatttttat-taattttttttctcttgatattttttagtggaaggggattttaactgtaatatcaaattcactactaatattagctggttgagcatgtgaacatgccatggttttttgaggattgatcttcgctattaagtattaacttcttttccttttatctttgtttcag
 ||||| |   ||   |  || ||||| || |||||||  |||||| | || ||  |||   | || |||||||| ||||||||||| |||||||| ||||||| |   ||||| | | |  ||||| |  |  | |||| | |  | | | | |       | ||| ||||   ||   | |  |             | |||  |||                                                                                  
AAGAGGTATCAAGAAGCGTTACTTCAACAGCGCATTTTCGGGATACGCCGTGGGTATGGCGGTGACCATCATTGTAATGAACTGGTTTCAAGCTGCACAGgtgagt---tctgttgctcaggtttatatggtcctgtttccccttgtttctgtcacctct--gtgatattaatactatggttatttgggggggggggggtggcttattgcag-------------------------------------------------------------------------------
















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|192334327|gb|FK025532.1|FK025532
EST:     TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
EST: gi|192297521|gb|FG992719.1|FG992719
EST:     TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
EST: gi|22928542|gb|BU545681.1|BU545681
EST:     TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
EST: gi|14008812|gb|BG725416.1|BG725416
EST:     TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
EST: gi|193550895|gb|FK509318.1|FK509318
EST:     TCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
EST: gi|22928857|gb|BU545996.1|BU545996
EST:     TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
EST: gi|192301904|gb|FG995522.1|FG995522
EST:     TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
EST: gi|26058470|gb|CA801384.1|CA801384
EST:     TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
EST: gi|7693245|gb|AW761340.1|AW761340
EST:     TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
EST: gi|4287540|gb|AI441204.1|AI441204
EST:     TTCCAAGCTGCTCAG                         CCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT
genomic: TTCCAAGCTGCTCAGgtgattggat ... tttgtttcagCCTGCCCTTCTATACATTGTACCTTCTGTTATTGGGTTTTTAGCTGCTCAT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGAGGAAAACAGCCCCAGTATTTCAAGAGTGCATTTTTAGGATACACTGTTGGCTTGGTCCTTACAATCATTGTGATGAACTGGTTCCAAGCTGCTCAGgtgattggatctgtagttaatttttattaattttttttctcttgatattttttagtggaaggggattttaactgtaatatcaaattcactactaatattagctggttgagcatgtgaacatgccatggttttttgaggattgatcttcgctattaagtattaacttcttttccttttatctttgtttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT