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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcttggatgatcatgtagtttctccctggtggatgttatggggacttaatcgttgtcctaatatgtgacattaatgaacatggttttgtatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTTAAAGATGGAAAAGAAGTTGACAAACTTGTAGGAGCCAACAAGCCAGAGC

Basic information

species Glycine max
transcript GLYMA16G34660.1
intron # 4
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|298165084|gb|HO011133.1|HO011133
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|192302694|gb|FG993714.1|FG993714
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCCTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|21676111|gb|BQ628462.1|BQ628462
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|6072588|gb|AW101975.1|AW101975
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|20813952|gb|BQ298430.1|BQ298430
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|19934415|gb|BQ079445.1|BQ079445
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|22524199|gb|BU083010.1|BU083010
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|193522449|gb|FK482154.1|FK482154
EST:     TCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|22524381|gb|BU083192.1|BU083192
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|23732021|gb|BU764165.1|BU764165
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|151400455|gb|EV270269.1|EV270269
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|192302695|gb|FG993715.1|FG993715
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCCTTT-T
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTC-TTTCT
EST: gi|15337017|gb|BI497673.1|BI497673
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|192314789|gb|FK006673.1|FK006673
EST:     GGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: GGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
EST: gi|151400687|gb|EV270501.1|EV270501
EST:     TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCT                         GACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT
genomic: TGAAATACCCGTCTATCATGTTCTTATTAGTCGATGTGGATGAACTAGCTgtaagtagcc ... tatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttaatcgttgtcctaatatgtgacattaatgaacatggttttgtatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTTAAAGATGGAAAAGAAGTTGACAAACTTGTAGGAGCCAACAAGCCAGAGC
                          attaatgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttcttggatgatcatgtagtttctccctggtggatgttatggggacttaatcgttgtcctaatatgtgacattaatgaacatggttttgtatgttgcagGACTTCAGCACTTCGTGGGACATCAAAGCCACACCAACTTTCTTCTTTCTTAAAGATGGAAAAGAAGTTGACAAACTTGTAGGAGCCAACAAGCCAGAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - -tggatga
- - - - - - tcatgta
- - - - - - - - - - -ttctccc
- - - - - - - - - - - - - - tggtgga
- - - - - - - - - - - - - - - - - -tgttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttttg