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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgaatcaccaggtctatgtaatgctgaagtattgcaatgttttcttttttttatcaacaccaagtatttttcatcttgtcctacgtttcttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGTGACAGTGGTGAACTAAACAACCTGATGGATTCAGAAAAGTACTCCAAGT

Basic information

species Glycine max
transcript GLYMA20G02410.1
intron # 2
splice site 3'
intron type U2

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|192296552|gb|FG992343.1|FG992343
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|298173466|gb|HO016802.1|HO016802
EST:     CAGGAAAAGTGGTCGAAGTTAACGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATT
EST: gi|298176557|gb|HO023144.1|HO023144
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|15201643|gb|BI424981.1|BI424981
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|193634705|gb|FK583892.1|FK583892
EST:     CTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|151402360|gb|EV272173.1|EV272173
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|18724033|gb|BM523536.1|BM523536
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|15662037|gb|BI699408.1|BI699408
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|192329128|gb|FK019743.1|FK019743
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|192296145|gb|FG989025.1|FG989025
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|31462996|gb|CD405024.1|CD405024
EST:     CAGGTAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACTAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|193319814|gb|FK285209.1|FK285209
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGAT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGAT
EST: gi|13787243|gb|BG649835.1|BG649835
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|192326214|gb|FK016301.1|FK016301
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|151401723|gb|EV271536.1|EV271536
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|151409130|gb|EV278938.1|EV278938
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|298178070|gb|HO027453.1|HO027453
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|193475473|gb|FK442072.1|FK442072
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|192328595|gb|FK020799.1|FK020799
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|6746878|gb|AW317334.1|AW317334
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTGTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|4291120|gb|AI437574.1|AI437574
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|151398516|gb|EV268387.1|EV268387
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|151411293|gb|EV281104.1|EV281104
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
EST: gi|298183887|gb|HO029100.1|HO029100
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAGAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAA
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAA
EST: gi|298165534|gb|HO011583.1|HO011583
EST:     CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTG                         GTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT
genomic: CAGGAAAAGTGGTCGAAGTTAATGAAAAACTTACCAGTTCTCCTGCTTTGgtgagtagta ... cttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttttttatcaacaccaagtatttttcatcttgtcctacgtttcttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGTGACAGTGGTGAACTAAACAACCTGATGGATTCAGAAAAGTACTCCAAGT
                                   tcctacgtttcttc  CT-rich tract
                  aagtattttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgaatcaccaggtctatgtaatgctgaagtattgcaatgttttcttttttttatcaacaccaagtatttttcatcttgtcctacgtttcttcatacagGTCAACACAAGCCCTTACAAAGATGGATGGATAATTAAAGTGGAGATGAGTGACAGTGGTGAACTAAACAACCTGATGGATTCAGAAAAGTACTCCAAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - -atcacca
- - - - - - -gtctatg
- - - - - - - - - - - -tgctgaa
- - - - - - - - - - - - - - - - - tgcaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgtcc