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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatctgatctctctctcttttttctttctccaatacttagggcatttttattcccttttccctttttgtttttctctctctctaaaattagatc...

Basic information

species Glycine max
transcript GLYMA18G03360.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 1
CAACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatctgatctctc--tctcttttttctttctccaatacttagggcatttttattcccttttccctttttgttt-ttctctctctctaaaattagatc
  |||||||| | ||||||   ||||| ||||||||||||||||||||| | |||||| |||||| |   ||| |||||||||| ||||||  |||||| ||||    ||  | | | |    || | ||||| | |||  | ||  ||          |||   |  |   | ||  |  | | |  |       | |    
-CACTACAACCGCGTCGCCCGCGACACCCGCAAGCGCGTCGTCGGCGTCCTCCTCGGCACCTCCTCCCGCGGCTCCGTCGACGTCACCAACTCCTACGCGGgtaaacctcccaacccccgccttcctgtttctctgtccgttgctagggtttgcgccgctccgggtaacggatatgactgctgtgttgcataggggtcacg--

upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G061745_T03 (Zea mays), 5'ss of exon 1
CAACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatctgatctctc--tctcttttttctttctccaatacttagggcatttttattcccttttccctttttgtttttctctctctctaaaattagatc
  |||||||| | ||||||   ||||| ||||||||||||||||||||| | |||||| |||| | |   ||  ||||||| || ||||||  |||||||||||    ||| |  ||||   | |     ||    | |  |    | |||     | | | |   ||   |      || |  || |          | | 
-CACTACAACCGCGTCGCCCGCGACACCCGCAAGCGCGTCGTCGGCGTCCTCCTCGGCACCTCATCCCGCGGGTCCGTCGATGTCACCAACTCCTACGCCGgtaaacctctcaagtctcaacccccgccctccagtttctctgtccatggctagggtttgcgccgctcaggtgcacgcttccggtcacgtatggggctgct-

upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 1
lower sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 1
CAACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacg--gatctgatctct--ctctcttttttctttctccaatacttagggcatttttattcccttttccctttttgtttttctctctctctaaaattagatc
  | |||||  | || ||||| |||||  ||||||||||||||||||| ||||||||      ||     || || || ||||| |||||||||||||| ||| |   ||| | |  | |  || ||| |||  | ||| | || || |  |   | | |     | ||    | ||| |  ||||    |  || ||  | | 
-CATTACAATCGTGTAGCCAAGGACACGAGCAAGCGCGTCGTCGGCGTTTTGCTCGGAAGTAGCTCTCGTGGTACTGTTGACGTCACCAACAGCTACGCAGgtgccttgattttactttttcctttctctttgttctcttcgat-ctcacagatctctgaaagtttgttaagctcttgctaatctcataattcaatat--gttt

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|193340172|gb|FK307793.1|FK307793
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGACTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAG-CTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCA
EST: gi|207800708|gb|GD774621.1|GD774621
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208271338|gb|GE068316.1|GE068316
EST:     CACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: CACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208063612|gb|GD861542.1|GD861542
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACC
EST: gi|208263542|gb|GE063368.1|GE063368
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193330502|gb|FK292774.1|FK292774
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|207764004|gb|GD738869.1|GD738869
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208179360|gb|GD976583.1|GD976583
EST:     CCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: CCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|207796133|gb|GD770196.1|GD770196
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|209700562|gb|BW670403.1|BW670403
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193348915|gb|FK315233.1|FK315233
EST:     GCTCGGCTCCTCCTTCTAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: GCTCGGCTCCTCCTTC-AAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|213595707|gb|DB968545.1|DB968545
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|151407202|gb|EV277017.1|EV277017
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193640151|gb|FK591836.1|FK591836
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|213587600|gb|DB971323.1|DB971323
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|207757386|gb|GD727166.1|GD727166
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACA-GGNTCCT-GCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208282820|gb|GE081114.1|GE081114
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193666669|gb|FK608822.1|FK608822
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208231928|gb|GE030883.1|GE030883
EST:     CCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: CCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208244006|gb|GE037963.1|GE037963
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACC
EST: gi|193457299|gb|FK423121.1|FK423121
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208180691|gb|GD976230.1|GD976230
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193642497|gb|FK591515.1|FK591515
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193670852|gb|FK612806.1|FK612806
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208194760|gb|GD989373.1|GD989373
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193367116|gb|FK330822.1|FK330822
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAA
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCA-
EST: gi|208326041|gb|GE119723.1|GE119723
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208127615|gb|GD921721.1|GD921721
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|207813028|gb|GD783660.1|GD783660
EST:     TGCTCGGCTCCCCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193676832|gb|FK618332.1|FK618332
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193349461|gb|FK318579.1|FK318579
EST:     TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCC                         GTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: TGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatc ... taatttgacaGTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTTACCAACAGCTACGCCggtacggatctgatctctctctcttttttctttctccaatacttagggcatttttattcccttttccctttttgtttttctctctctctaaaattagatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccttttc