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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatatttcctgtttggaagttcatttatttgctgatagaactgtaacgcgcaatcaaccttcccttttgttatggttttggttacatacaattctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTAT

Basic information

species Glycine max
transcript GLYMA11G18710.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os08g01180.1 (Oryza sativa), 3'ss of exon 6
gtgatatttcctgtttggaagttcatttatttgctgatagaactgtaacgcgcaatcaaccttcccttttgttatggttttggttacatacaattctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTAT
  | || ||  | | |  |  ||  ||| |||    | | | |||    | |  |||    ||        | |||| | |   |   |  |||| ||     | ||||||||||| || || ||||| ||| |||||||||||||||||||||| ||||||||| | ||  |||| || ||||| |||||| | ||||| ||||| |
--gttagttattctcttcagttt--ttttttta--aaaaaatctgctttgtggcatctgtttttatcaac-tcatggctgtatcttttttgaattttgg----tacagTGGCTTAGAAGTTTCGATCAGCGTGTGCGTGAGAGCATTGACTATGCAATTTGCTTGAACAGCGTTGGTTCCTGGGACAATGAACTCTGGATGCATGTGT

upper sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G021784_T01 (Zea mays), 3'ss of exon 6
gtgatatttcctgtttggaagttcatttatttgctgatagaactgtaacgcgcaatcaaccttcccttttgttatggttttggttacatacaattctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTAT
               |       ||||| |||| |     ||||    |         |   |  | | |||    |        |  |    || |  ||  | |||||||||||||| |||||||| ||| | || |||||||||||||| || ||||||||| | | | |||| || ||||  |||||  | ||||| |||||||
--------------gtaagtacccatttgtttgatttagcaactaggtcctttg--tgattgtgtcatctgtgtaagcaacttacagctgttttttttaatgatgcagTGGCTTAGGAGTTTTGATCAGCGTGTACGCGAGAGCATTGACTACGCAATTTGCTTGAACAATGTTGGTTCCTGGGGCAATGACCTCTGGATGCATGTAT

upper sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G451366_T02 (Zea mays), 3'ss of exon 6
gtgatatttcctgtttggaagttcatttatttgctgatagaactgtaacgcgcaatcaaccttcccttttgttatggttttggttacatacaattctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTAT
               |       ||||| |  | |     ||||    |   |  |    | ||  | |    |   ||   | |   |   | ||  |  |   |||||||| ||  | |||||||| ||| | || ||||||||||||||||| ||||||||| | ||| |||| || |||   |||||  | ||||| |||||||
--------------gtaagtacccatttgtgcgatttagcaactaggtccttctttgtgtcatctgtgtaagca-acttacagctgttttttaatcaacgatg--cagTGGCTAAGAGGTTTTGATCAGCGTGTACGCGAGAGCATTGACTATGCAATTTGCTTGAACAGTGTTGGTTCCTGGAGCAATGACCTCTGGATGCATGTAT

upper sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G44330.1 (Arabidopsis thaliana), 3'ss of exon 6
---------gtgatatttcctgtttgg-aagttcatttatttgctgatagaactgtaacgcgcaatcaaccttcccttttgttatggttttggttacatacaattctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTAT
          | |  | |    | |   ||   ||| |  || ||| |    ||||   | ||| |      |    || ||| |    ||  |||   |  ||  |   || | |||||||| | |||| |||||||  |  |||||||||||||||| ||||| ||||||||| | ||| |||| |||||||| | |||| | | ||| ||||| |
gtactcgacctaacttattgattctactaaaaccatatccttcctgcttcttctgtttggtgcatttg----taaacttggttgtatccttcatta---agcatcatatcttctgcagTGGCTAAAGAGCCTTGATCAGAGGATGCGTGAGAGCATTGATTATGCCATTTGCTTGAACAGTGTTGGTTCTTGGGACAGTGAACTATTGATCCATGTGT

upper sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 6
gtgatatttcctgtttggaagttcatttatttg------ctgatagaactgta-acgcgcaatc----aaccttcccttttgttatggttttggt-tacataca-attctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTAT
|| ||     |  |||||  | | ||   |||       ||  || |  || | |  |  || |     |    |  | || || | | |||| | ||  |  | ||||| | || | ||||||||| | || |||||||||||| |||||||||| ||||||||||| || |||||| |||| ||||| || ||||| |||||| | ||||||||||| |
gtaattacctccctttggtggattatacttttaattctccttttaaagttggatatacttaaactgaagattgccgttctttttcttgctttgttatatttttatattctactttgtgcagTGGCTTCGAAGTTTTGATCAACGTTTGCGTGAGAGTATTGACTATGCAATCTGCTTGAATAGCATTGGTTCATGGGATAATGAACTATGGATTCATGTGT

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|11687645|gb|BF595321.1|BF595321
EST:     TGTTTGGGCTAACGTCTGGTGGGCCTTATAACTACAATGGAACCCATAAG                         TGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT
genomic: TGTTTGGGCTAACGTCTGGTGGGCCTTATAACTACAATGGAACCCATAAGgtgatatttc ... catttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT
EST: gi|8284372|gb|BE021931.1|BE021931
EST:     TGTTTGGGCTAACGTCTGGTGGGCCTTATAACTACAATGGAACCCATAAG                         TGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT
genomic: TGTTTGGGCTAACGTCTGGTGGGCCTTATAACTACAATGGAACCCATAAGgtgatatttc ... catttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT
EST: gi|18039922|gb|BM308216.1|BM308216
EST:     TGTTTGGGCTAACTTCTGGTGGGCCTTATAACTACAATGGAACCCATAAG                         TGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT
genomic: TGTTTGGGCTAACGTCTGGTGGGCCTTATAACTACAATGGAACCCATAAGgtgatatttc ... catttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT
EST: gi|208050471|gb|GD845554.1|GD845554
EST:     TGTTTGGGCTAACGTCTGGTGGGCCTTATAACTACAATGGAACCCATAAG                         TGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT
genomic: TGTTTGGGCTAACGTCTGGTGGGCCTTATAACTACAATGGAACCCATAAGgtgatatttc ... catttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT
EST: gi|151406228|gb|EV276043.1|EV276043
EST:     TGTTTGGGCTAACGTCTGGTGGGCCTTATAACTACAATGGAACCCATAAG                         TGGC-TAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT
genomic: TGTTTGGGCTAACGTCTGGTGGGCCTTATAACTACAATGGAACCCATAAGgtgatatttc ... catttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcaaccttcccttttgttatggttttggttacatacaattctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTAT
                                             catttttc  CT-rich tract
             ttttgttat  TA-rich tract