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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatggatgaaacttatgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA

Basic information

species Glycine max
transcript GLYMA13G43680.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 7
gttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatgg-atgaaacttatgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                      | | | | |   | | | | |||   | | |  |  |||  |    | ||   ||   ||| ||||  ||    |  |||| ||||| |||||||| || || || || ||||| ||||| || ||||| || ||||||||  | |||||||| || || |||||||| ||||||||||||||||
----------------------gttttttttttctatccacttttgagtgttc-caagtatccacgattctgtgcagtcctaagatggtgtggtcatggtgaaccagGTCTGGGATTACCAAACGAAGAGCTGTGTTCAGACACTTGAAGGACATACACACAACATTTCTGCTGTTTGTTTCCATCCTGAGCTTCCTATAATCATTA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
gttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatggatgaaacttatg---aatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                          ||     |||||| ||  |  || |    |    |  ||   | |    ||   |||  ||| ||    |||||   ||  |||| |||||||| ||||| || || ||||| ||||| || ||||| || ||||| ||| | |||||||| || || |||||||| || |||||||||||||
-------------------------gtacaattttgtactcagctgtatgttttgagtgtttgattgttctatccagtcctaaggtgg-tgtgctttatggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 6
gttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatggatgaaacttatg---aatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                          ||  |  ||||||  |  |  || | |  |  | | | |   | |    || | ||  |||| ||    |||||   ||  |||| |||||||| ||||| ||||| ||||| ||||| || ||||| || ||||| ||  | |||||||| || || |||||||| || |||||||||||||
-------------------------gtacatttttgtactgaggtgtatgttctgaattttttgttgctctatgcagtattatgatgg-tgcgttttatggcaaagtagGTCTGGGATTACCAGACGAAAAGCTGTGTTCAGACACTTGAAGGGCATACACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 8
gttttgttttcatttgttgcttgatctatctgcttgtacg-catttacatatacatacatatatatatatatgaaaaggaataacatggatgaaacttatgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                                   ||| | ||| | ||| | || | ||    || |     |  | || | |  ||| |  |||||  |||| |||| ||||||||||| || || || ||||| || || || ||||| ||  |||| ||||| ||||||||||| || |||||||| ||||| ||||| || |
-----------------------------------gtatgacatgttcatttgcacatatgagcattttggacattatgactgat-tggtt--aactt--gaattagGTTTGGGATTATCAAACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTCTCTGCTGTATGTTTCCATCCTGAGCTTCCAATAATAATGA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 3'ss of exon 7
gttttgttttcatttgttgcttgatctatctgct-tgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatggatgaaacttatgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
            | || | || | |     | |  | |  |   ||  ||   | |    || ||| ||| || | |    |   |    ||  |||| |   |||||||||||| ||||| |||||||||||||||||||| ||||| || |||||||||||||| ||||| ||||| || ||||| || ||||| ||||| || |
-----------gtatgcttctggttaagcttccaatatctgtgctttgattcccctgagaat-tatgtatttgcagatcgtt--tactagtggtactttt---tcagGTATGGGACTATCAAACCAAAAGTTGTGTCCAGACGCTAGATGGGCACACACACAATGTTTCTGCCGTATGTTTCCATCCAGAGCTTCCAATAATAATCA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 11
-------------------gttttgttttcatttgtt-gcttgatctatctgcttgtacgcatttacatatacat-acatatatatatatatgaaaagga------------ataacatggatgaaacttat---gaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                   | ||  ||   | ||||| |||  || | | |||||||| | || | ||| |  ||    | ||||||  |  |   |||             |||   |  || ||  |  |   ||| ||||| |||||||| || || || ||||| || ||||| || |||||||| ||||||||||| ||||| ||||  |||||||| || || |||||||| ||||
gtctgtactgagctttcttgcttctttgcaagttgtttgctacatatgtgtgcttgtatgtatctccatttgtattgtttgtatataggttcgtgcagggttttctgtttgtatattgttcataaatttcttctggaagcagGTGTGGGATTACCAAACAAAGAGTTGCGTTCAGACTCTCGAAGGTCATACACACAATGTTTCTGCAGTATCTTTTCATCCAGAGCTACCTATAATTATTA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 7
gttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatggatgaaacttatgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
  | ||  | |   ||||   || ||| |  | |  |||   | ||| |  ||||       ||| |   |  |    | | || | | ||||  |  |||||||||| ||||| || || || ||||||||||| |||||||| || || |||||||||||||||||||| ||||| || ||||| || ||||| || || || |
-gtatgcctcc---tgttcaatggtcttttagttgatacatttctac-tggacat-------tatgtgctttcaggttatttac-tagttgaatttcgtgaatcagGTCTGGGACTACCAAACAAAAAGTTGTGTACAGACCCTGGAGGGGCACACACACAATGTATCTGCAGTATGTTTCCATCCAGAGCTTCCAATTATAATCA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 7
gttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataa-catggatgaaacttatgaat-cagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
            | ||  | |||||  |  |  ||  | ||   |   | ||  ||  |||     |  ||  || | |||   ||||||  || | |   ||| ||||| ||||| ||||| |||||||||||||||||||| || ||||| |||||||||||||| ||||| || ||||| |||||||||||||| ||||| || |
-----------gtctgccg-ttgat--aattattttcaagc---tgtgttta-gtatttatgcggtttgatagaaggaaatgttcatggacaaatcctccaaatgcagGTGTGGGACTATCAAACCAAAAGTTGTGTCCAGACACTGGAAGGCCACACACACAATGTTTCTGCAGTCTGCTTCCATCCTGAACTTCCCATAATAATAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 7
gttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatggatgaaactta-tgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
     || || || || ||||| ||  |     | |    ||||||  |  |  | ||| |   ||  |                ||  | ||  ||  || | ||||| ||||| || || |||||||||||||| ||||| |||||||| |||||||||||||| ||| | || || || ||||| || |||||||| ||  |||
-----gtgtttatctgatgctt-attgactaaatagcttccatttatgtgcat-tccatttgattactttc------------tgtgattaaattttggtggaacagGTGTGGGACTACCAAACCAAAAGTTGTGTTCAGACACTAGAAGGCCACACACACAATGTTTCTTCAGTCTGTTTCCATCCAGAGCTTCCTATTATTTTTA

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|9987279|gb|BE661387.1|BE661387
EST:     GTGGTGACAAACCATATCTAATCACTGGTTCTGATGATCACACTGCTAAG                         GTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACA
genomic: GTGGTGACAAACCATATCTAATCACTGGTTCTGATGATCACACTGCTAAGgttttgtttt ... tatgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatacatatatatatatatgaaaaggaataacatggatgaaacttatgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
                          gaataac  putative branch site (score: 2)
      atatatatatatatga  TA-rich tract