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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgatgaggggttagattcacactttgcaaagtccccctttcatgcatactgttggttgagactttcctataattgcttgacttatttaatatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG

Basic information

species Glycine max
transcript GLYMA14G36280.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 7
tgtgatgaggggttagattcacactttgcaaagtccccctttcatgca--tactgttggttgagactttcctataattgcttgacttatttaatatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG
  | ||   || |    ||||     |   |  ||   |  |  || |  || |    | |||   | | ||   || |||||| ||  |   | | | ||| ||||||||||||| |  |||||||||||||| || || ||||| ||||| ||||| ||||| || |||||||| ||||  ||  | || |||
-attatctaggatatttttcattgcctcatatctctttcaattgtgaaattatttcaagatgaatttctgctgacat-gcttgatttgctacttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCAAGTGCATATGCGCGTCTTTATGACTATGACCGCATGCGGAAG

upper sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 7
---tgtgatgaggggttagattcacactttgca-aagtccccctttcatgcatactgttggttgagactttcctataattgcttgacttatttaatatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG-------
   ||| |       ||   ||   |   |  | |  |       | |  || |||      | |   | ||||||    |||| | ||  |   |||    ||||||||||||| || |  |||||||||||||| || ||  |||||||||| ||||| |||||||| || ||||||||||  ||| | || |||       
atttgtcactgtcatttctctttgtatggtaaacatattttgagatgaatcacactaacaccttactttctcctat----gcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAGGCAAGGT

upper sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G135283_T03 (Zea mays), 3'ss of exon 7
---tgtgatgaggggttagattcacactttgca-aagtccccctttcatgcatactgttggttgagactttcctataattgcttgacttatttaatatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG
   ||| |       ||   ||   |   |  | |  |       | |  || |||      | |   | ||||||    |||| | ||  |   |||    ||||||||||||| || |  |||||||||||||| || ||  |||||||||| ||||| |||||||| || ||||||||||  ||| | || |||
atttgtcactgtcatttctctttgtatggtaaacatattttgagatgaatcacactaacaccttactttctcctat----gcttcatttgctacctatgtatagTTGGAGAAAAGCGCTGTTCTTTTTAGGCCAAAGTTGATCATTGCTGGTGCAAGTGCATATGCTCGGCTATATGATTATGACCGTATGCGGAAG

upper sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 7
----------------------------------------------------------------tgtgatgaggggttag---attcacactttgcaaagtccccctttcatgcatactgttggttgagactttc--ctataattgcttgactt---atttaata-tccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG
                                                                || |||  ||| |||    || ||  |||| |    | |   | | |||   | |  | |   ||  |||   | | | ||  || | ||   ||  |||| |  |||| | || || ||||| |  ||||| || || ||| | || ||||| ||||| |||||||||||||| || ||||| ||||||||| |||| |||
gttggttagttcatagccagcttagcttaatgcttcaacattctatctttatccaatataccattgagatatgggtttaatacatacaagcttttcgtt-tacggttcttatgttaagtaattgaacagtttttaaaccaaagtttatttatttgtgatacaataatttgcagCTAGAAAAGAGTGCCGTGCTTTTCAGACCGAAACTTATTGTTGCGGGTGCAAGTGCTTATGCTCGTCTATATGACTATGCACGTATTCGTAAG

upper sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 7
----------tgtg-atgaggggttagattcacactttgcaaagtccccctttcatgcatactgttggttgagactttcctataattgcttgacttatttaatatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG
          |||  || | | |||   || |  | |  ||||         | |   | | ||   |||||    ||  |  |||      | | |||        |||||||||||||||||| || || || || |||||| |||| |||||||| || ||||| ||||| || |||||||||||||||||| | ||||||
tttccaattttgtttataaagagttgactttatgcctatcaaacaaataaaataaaataaaatgaaagttga---ctttgtgaaataaaaatattcatt--------gcagTTGGAGAAAAGTGCTGCCCTCTTCAGACCAAAACTAATTGTTGCTGGCGCAAGTGCCTATGCACGTCTTTATGATTATGCACGTATCCGCAAG

upper sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S51_296V6.1 (Physcomitrella patens), 3'ss of exon 4
tgtgatgaggggttagattcacactttgcaaagtccccctttcatgcatactgttggttgagactttcctataattgcttgacttatttaatatccgc----agTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG
     | |    ||| || ||  |  |||  | ||  | | |  | |  | |    | ||| | | | |   | ||  ||||   |  ||| ||   |    |||||||||||| ||||   ||||| ||||||||| | ||||| |||||| ||||||| |||||||||| ||| || ||  |  || |  | |||
--cttttaaatattaaatgca-gcaatgcttactcgtcttgttttcctcaatccatgatgaaattgtgcatcagtta-ttgaaaaaaataacatttacgttcagTTGGAGAAAAATGCATTTCTTTTCAGGCCAAAACTGATAGTAGCTGGTTCTAGTGCCTATGCTCGCCATTACGACTACACTGGTATGAGTAAG

upper sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S79_54V6.1 (Physcomitrella patens), 3'ss of exon 7
------------------------------------------------------------------------------------------tgtgatga-ggggttagattcacactttgcaaagtccccctttcatgcatac-tgttg--gttgagactttcctataattgcttgacttatttaatatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG
                                                                                          ||||||   | || | | |||   || ||   | || || |||| |  | |   ||||  |||| || | |  | |||  | |  | ||     | ||  |||| |||||||||| ||||  ||||  ||||||||||| ||||| |||||||| ||||| |||||||||| ||| || ||||| ||| | ||||||
gtactaactgcaaaccattagttgtggtcctgtataatgctcttatgcatgtacatccttttgatgtatatccttggataatatttttgatgtgattttgaggattgtttctagctatgatcactctccttttcctaaacatgcgttgaagttgtgagtctaatttaacagatcaatttg---gaaatttgcagATGGAGAAAAGCGCAGTTCTTTACAGGCCAAAATTGATAGTAGCTGGTGCCAGTGCCTATGCTCGCCATTACGACTATGCTCGTATGCGCAAG

upper sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S21_270V6.1 (Physcomitrella patens), 3'ss of exon 7
tgtgatgaggggttagattcacactttgcaaagtccccctttcatgcatactgttggttgagactttcctataattgcttgact-tatttaatatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG
 | |  |    |||  | |     ||  | |||           |      | ||   ||| |  |||    | ||  || |   ||||   | ||| ||| ||||||| || ||| |||| || || ||||| || ||||| |||||||||||||||||||| |||| ||| || || || ||  | ||| ||
-gcgcagtttcgttgcagttgattttcccgaagattatgaaaactaggagtttttttctgacagattctctaacttttttcatcatattctttttccccagATGGAGAAGAGCGCAACACTCTTCAGACCAAAGTTGATAGTCGCTGGTGCTAGTGCTTATGCCCGCCATTACGACTACGCTCGCATGCGCCAG

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|192312199|gb|FK003920.1|FK003920
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
EST: gi|151396057|gb|EV265934.1|EV265934
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
EST: gi|19348549|gb|BM893081.1|BM893081
EST:     ATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: ATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
EST: gi|27426205|gb|CA937725.1|CA937725
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         G
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcag-
EST: gi|27426205|gb|CA937725.1|CA937725
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         G
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcag-
EST: gi|192312198|gb|FK003919.1|FK003919
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
EST: gi|209724640|gb|BW651425.1|BW651425
EST:     CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG                         TTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT
genomic: CAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggt ... atatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatactgttggttgagactttcctataattgcttgacttatttaatatccgcagTTGGAGAAAAGTGCAGCACTTTTTAGGCCAAAATTAATAGTTGCTGGTGCTAGTGCTTATGCTCGCCTTTATGATTATGCACGTGTTCGCAAG
                                        atttaat  putative branch site (score: 4)
                                 ttgacttatttaatat  TA-rich tract