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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaaatttgcttcactgggtttattttaatgtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA

Basic information

species Glycine max
transcript GLYMA04G37050.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
gttaaatttgcttcactgggtttattttaatgtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
     | |  ||| |  | | | ||    |  ||     | |       |||   | |   | ||   |  | ||  ||| ||   ||||||||||| |||||||| || |||||||||||||| ||||| || || || |||||||||||||| || || ||||| || || 
---gtactccctttatagagct-atgcagagttccagattgttcacatcttgaatactccttttgc--tgatatctgattctga--cagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG

upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 22
gttaaatttgcttcactgggtttattttaat-gtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA----------------
        |  || |||   |   |  || | |||  || | |   ||     ||      |||||     || |      || |  |||||||||||||| || || |||| ||| |||||||| ||||| ||||| || ||||||||||| || || || || || || ||                 
-------gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAGGTAAGTAAATTGTAAT

upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 22
gttaaatttgcttcactgggtttattttaat-gtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
        |  || |||   |   |  || | |||  || | |   ||     ||      |||||     || |      || |  |||||||||||||| || || |||| ||| |||||||| ||||| ||||| || ||||||||||| || || || || || || || 
-------gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
gttaaatttgcttcactgggtttattttaat-gtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
  ||  | |||  |  |    | ||     | ||  | | | |    || || || | |||  |||  |||    |      |    ||||||||||| ||||| ||||| ||||| |||||||||||||| || || || |||||| ||||||| || || || || || || 
-gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttatt-actttg-ctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G042074_T01 (Zea mays), 3'ss of exon 22
gttaaatttgcttcactgggtttattttaatgtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
     | ||  |  | |||       |   | | |  ||  |    ||  ||  |||| || |  | |   |  || |||||    |||||| ||||||| || ||||| |  || |||||||||||||| ||||| |||||||||||||| || || || ||||| ||||| 
---gtactta-tcaattggacaagcctctgttttttggcagttgagtatctg--cattatagc-atctaaataacctatttt---ccagTGGCTTGGTGAAGGAGAAAAATTCGTGAAAGCTGTTTTTTCACTGGCAAGTAAAATTGCTCCAAGTGTAATTTTTGTGGACGAG

upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
gttaaatttgcttcactgggtttattttaatgtctctgctatcagttagttgttcat--tttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
         |  | | |     || |          ||  ||    || |   |||    | | | ||| | | ||  |       |||||||||||||||| || || |||||||| || |||||||| || || || |||||||| || || || || |||||| |||| || 
---------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgttaac------tttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 13
gttaaatttgcttcactgggtttattttaatgtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
         |  | | | |   ||       |   ||| |   | | | ||||   |     ||       |    | |||   |||||||||||||||| || || |||||||| || |||||||| || || || |||||||| || || || || |||||| | || || 
---------gtattatttgacctagc---gggcaactgatgagattcacttgtgtctcaagccta-accagtggttcgtttactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCCCCCAGTGTTATATTTATCGATGAG

upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G62130.1 (Arabidopsis thaliana), 3'ss of exon 21
---gttaaatttgcttcactgggtttattttaatg-tctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
       ||| | ||| |   | |  | | ||    | | | |    | |   |||||||    |  ||||||||| ||  || |||   ||||||||| |||||||||| || |||||||||||||| |||||  |||||||||||||| | || ||| | || ||| | ||||| 
gtaacagaatatccttgaaaagttggactctaccaatttatacacggaatctcttgttcaa---acttgtgttcttctca-atattg---cagTGGTTTAGTGAGGGTGAGAAATATGTCAAAGCTGTCTTTTCGTTGGCTAGTAAAATTTCCCCAAGCATTATCTTTTTGGACGAG

upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G24860.1 (Arabidopsis thaliana), 3'ss of exon 21
gttaaatttgcttcactgggtttattttaatgtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
    || |   | | ||  |   | ||  |    | | | |   |  |  | ||  |   |  ||||||||| |    |  | || |||||||||||||||||||| ||||||||||||||||| |||||  |||| ||||||||  | |||||||| || ||||| ||||| 
--gtaactgaatactctatgaaaagttctaccgatttac-acacgggatctttttttcaaacttgtgttcttct----taatactgcagTGGTTTGGTGAGGGTGAGAAGTATGTCAAAGCTGTCTTTTCTTTGGCCAGTAAAATGTCCCCTAGCGTTATCTTTGTGGACGAG

upper sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
------gttaa--atttgcttcactgggtttattttaatgtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgctt----cagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
       || |  | | |||||  |   | |||       |||||    |  |||  |  ||  |||| |||  | |  |||| ||| || |||    ||||||||||| ||||| || |||||||| || || ||||| || || || ||||||||||||||||| ||  ||||||| || |||
gttatcattgataagtagcttc-ttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA

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|16283953|gb|BI945829.1|BI945829
EST:     AAGCTGGTGCAAATTTCATCAACATTTCCATGTCAAGTATCACATCTAAG                         TGGTT-GGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGT
genomic: AAGCTGGTGCAAATTTCATCAACATTTCCATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGT
EST: gi|10845533|gb|BF071131.1|BF071131
EST:     GCAAATTTCATCAACATTTCCATGTCAAGTATCACATCTAAG                         TGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGT
genomic: GCAAATTTCATCAACATTTCCATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA
                               tgttcttttcccattt  CT-rich tract
                  ttcattttat  TA-rich tract