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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGGCTGCCAAAGGCAGTGTTCCAATTGGTATAGGCAGGAACTCTCATATCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcatcttctattatatacaattttgttcgttgttttacattctaagccattttttcccaagacaacaggtgaggcatagtagcttttaggtgat...

Basic information

species Glycine max
transcript GLYMA14G01290.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G01290.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os09g12660.2 (Oryza sativa), 5'ss of exon 8
TCTGGCTGCCAAAGGCAGTGTTCCAATTGGTATAGGCAGGAACTCTCATATCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcatcttctat-tatatacaattttgttcgttgttttacattctaagccattttttcccaagacaacaggtgaggcata-gtagcttttaggtgat---------
 ||  |||  |  ||  |  |||| |||||||| || | |||  | || |||| ||  ||||| ||||||||||||||||| ||||| |||||||| |||||      || |  ||| ||| || | ||||| | ||   | |      | |    |   |||   |   ||| | | |   ||   |  |||  | |  |          
CCTTTCTGAGACTGGTGGCATTCCCATTGGTATTGGAAAGAATGCACACATCAGAAAAGCAATAATTGACAAGAATGCTCGTATTGGAGAAAATGTTAAGgt------atttcatatatatttatacttttggttgtcaatctga----tgaagtgtgccttctgtat-taactgatcaactattcattacttgaaagaaaagagagggac

upper sequence: GLYMA14G01290.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G068506_T02 (Zea mays), 5'ss of exon 8
TCTGGCTGCCAAAGGCAGTGTTCCAATTGGTATAGGCAGGAACTCTCATATCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcatcttctattatatacaattttgttcgttgttttacattctaagccattttttcccaagacaacaggtgaggcatagtagcttttaggtgat-
 || || |  |||||  |  |||| |||||||| || |  || ||    ||||  || ||||| ||||||||||||||||||||||| || ||||| |||||  |   | ||  | ||  | ||  |   |    ||  |||| ||| |     |   | |  ||  | |   | |  | |||  |  | | |   |  | 
CCTTGCCGAAAAAGGTGGCATTCCTATTGGTATTGGGAAAAATTCATGCATCAGGAGAGCAATCATTGACAAGAATGCTCGAATTGGAGACAATGTTAAGgtattccaaactgatgttcca-acggtcaagaatattaatttagatttttccttaggatattacataatacttgatatgccattttgtcctcttattttta

upper sequence: GLYMA14G01290.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G163437_T01 (Zea mays), 5'ss of exon 8
TCTGGCTGCCAAAGGCAGTGTTCCAATTGGTATAGGCAGGAACTCTCATATCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcatcttctattatatacaattttg--ttcgttgttttacattctaagcc-attttttcccaagacaacaggtgaggcatagtagcttttaggtgat
 || || |  || ||  |  |||| |||||||| || | ||| || || |||| ||  ||||| ||||||||||||||||||||||| || ||||| |||||  |   | ||  | || || ||  |   |  |   ||| | ||  || | | |  |   |  | ||  | |   | |  |  ||  |  | | |   |   
CCTTGCCGAAAATGGTGGCATTCCCATTGGTATTGGGAAGAATTCACACATCAGAAAAGCAATCATTGACAAGAATGCTCGAATTGGAGATAATGTGAAGgtatttcaaactgatgttcta-acggtcaagaatatattggtctatttttttaccttaagataccacataatacttgatatgttattttctcctcttaatt--

upper sequence: GLYMA14G01290.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 5'ss of exon 8
TCTGGCTGCCAAAGGCAGTGTTCCAATTGGTATAGGCAGGAACTCTCATATCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcatcttcta---ttatatacaattttgttcgttg-ttttacattctaagccattttttcccaagacaacaggtgaggcatagtagcttttaggtgat--------------
|||    || ||||| ||||||||||||||||| || | ||||||||| |||||||| || || || |||||||||||||| || ||||| ||||| |||||| |    |    ||   |   ||  | | || ||| |   |||    |||||       | || | | ||  |   |   |  ||  ||  ||   |  ||               
TCTAATGGCAAAAGGTAGTGTTCCAATTGGTATCGGTAAGAACTCTCACATCAAAAGAGCGATCATCGACAAGAATGCTCGCATCGGGGACAATGTGAAGgttgtgattttaattaacttagcatggattatttttcatcaatttcgttttctactggtaatgttgctatgatgatgaggttgtgattttaatttagcgaagaaatttgttatttcag

upper sequence: GLYMA14G01290.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S76_105V6.1 (Physcomitrella patens), 5'ss of exon 8
TCTGGCTGCCAAAGGCAGTGTTCCAATTGGTATAGGCAGGAACTCTCATATCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcatcttctattatatacaattttgttcgttgttttacattctaagccattttttcccaagacaacaggtgaggcatagtagcttttaggtgat---
  ||   |||| |||  |  |||| || ||||| ||||  || ||   | | ||||| |||||||| ||||||||||| ||||| || |||||||| |||||   ||  | |  ||     || || ||  |   | |  | |     |      |||  | |  | | |   | | | |      |  |   |    ||   
GTTGTTAGCCACAGGTGGCATTCCCATGGGTATTGGCAAAAATTCAGTTGTGAAAAGAGCAATTATCGACAAGAATGCACGAATCGGAGAAAATGTGAAGgt---aggctatgttagatgttagaagttactgaatggaatcaaggcgtgttgtctttcgtgcacacaaatttgttcatgttgttcaaatccaactctatcgc

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|120494929|gb|EH223096.1|EH223096
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|5753338|gb|AI960625.1|AI960625
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|209712746|gb|BW681600.1|BW681600
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|31472397|gb|CD414425.1|CD414425
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|22522873|gb|BU081684.1|BU081684
EST:     TCAAAAGGGCAATTGTCGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|17401414|gb|BM178196.1|BM178196
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|15287005|gb|BI470896.1|BI470896
EST:     TCAAAAGGGCAATTATCGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|10238679|gb|BE807567.1|BE807567
EST:     TCAAAAGGGCAATTATCGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|17518996|gb|BM188038.1|BM188038
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|31468241|gb|CD410269.1|CD410269
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|31461779|gb|CD403807.1|CD403807
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|192295337|gb|FG985991.1|FG985991
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|12772914|gb|BG237831.1|BG237831
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|51335512|gb|CO979378.1|CO979378
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|10232477|gb|BE801365.1|BE801365
EST:     TCAAAAGGGCAATTATCGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|5770728|gb|AI973902.1|AI973902
EST:     TCAAAAGGGCAATTATCGACACGAATGCTCGAATCGCGGAAAATGTCAAG                         ATTATTAACAGCGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGCTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|6070499|gb|AW099886.1|AW099886
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|7640498|gb|AW734799.1|AW734799
EST:     TCAAAAGGGCAATTATCGACAAGAATGCTCGAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
EST: gi|22929307|gb|BU546446.1|BU546446
EST:     TCAAAAGGGCAATTATTGACAAGAATGCTNNAATTGGGGAAAATGTCAAG                         ATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT
genomic: TCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcat ... caatactcagATTATTAACAGTGACAATGTCCAAGAAGCTGCAAGGGAAACAGATGGGTAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTGGCTGCCAAAGGCAGTGTTCCAATTGGTATAGGCAGGAACTCTCATATCAAAAGGGCAATTATTGACAAGAATGCTCGAATTGGGGAAAATGTCAAGgttatagcatcttctattatatacaattttgttcgttgttttacattctaagccattttttcccaagacaacaggtgaggcatagtagcttttaggtgat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgagg