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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaggtggctataatcacatcgagaatggttcaactataaatatgattctgtccttgtgtttgaaatgcttaacactgtgttaatttttaacatgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCAAAAGTTACTATGGACGATATCAAATCAGACGAACCCGAATCATGAACAT

Basic information

species Glycine max
transcript GLYMA20G31530.1
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|213590094|gb|DB982876.1|DB982876
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|10844913|gb|BF068103.1|BF068103
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|31467392|gb|CD409420.1|CD409420
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|193427199|gb|FK393449.1|FK393449
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|7686527|gb|AW757175.1|AW757175
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|20811757|gb|BQ296235.1|BQ296235
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTAT
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTAT
EST: gi|23057465|gb|BU578139.1|BU578139
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|6482536|gb|AW201793.1|AW201793
EST:     TCANATATAAGAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         NCAAATACACGTATACCGGATAA-TAGCATTATGGGCTATGAAAACTACCC
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATAC-GGATAAATAGCATTATGGGCTATGAAAACTACCC
EST: gi|58021654|gb|CX708395.1|CX708395
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|7041680|gb|AW471521.1|AW471521
EST:     CAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAAG                         C-AAATACACGTGTACGGAT
genomic: CAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACA-Ggtactagagc ... catgtgacagCCAAATACACGTATACGGAT
EST: gi|6727136|gb|AW311490.1|AW311490
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|213595229|gb|DB962368.1|DB962368
EST:     TCAAATATAANAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACC
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACC
EST: gi|18041202|gb|BM309496.1|BM309496
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATT
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATT
EST: gi|120531050|gb|EH259183.1|EH259183
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|6913237|gb|AW394767.1|AW394767
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|192314356|gb|FK008382.1|FK008382
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGCATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|19270148|gb|BM886404.1|BM886404
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|10843966|gb|BF070885.1|BF070885
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATG
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATG
EST: gi|209706771|gb|BW678140.1|BW678140
EST:     AAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: AAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|192314357|gb|FK008383.1|FK008383
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGCATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|193359983|gb|FK327175.1|FK327175
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|20811579|gb|BQ296057.1|BQ296057
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|31467085|gb|CD409113.1|CD409113
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|20449003|gb|BQ253127.1|BQ253127
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|31467447|gb|CD409475.1|CD409475
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCT
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|20812116|gb|BQ296594.1|BQ296594
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|10710505|gb|BF010223.1|BF010223
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGATAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|7796758|gb|AW782152.1|AW782152
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGC
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGC
EST: gi|6913271|gb|AW394801.1|AW394801
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA
EST: gi|20448527|gb|BQ252651.1|BQ252651
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTAT
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTAT
EST: gi|20207519|gb|BQ133608.1|BQ133608
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGG
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGG
EST: gi|11687669|gb|BF595345.1|BF595345
EST:     TCAAATATAANAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATTCGGATAAATAGCATTATGGGCTATGAAAACTAC
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTAC
EST: gi|10233317|gb|BE802205.1|BE802205
EST:     TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAG                         CCAAATACACGTATACGGATAAATAGCATTATGGGCTATGANAACTACCCA
genomic: TCAAATATAAAAAGAAGAAACATTATCGCAGAAACATTGGACACAGACAGgtactagagc ... catgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgtccttgtgtttgaaatgcttaacactgtgttaatttttaacatgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCAAAAGTTACTATGGACGATATCAAATCAGACGAACCCGAATCATGAACAT
                                       ttttaac  putative branch site (score: 2)
                                tgttaatttttaacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaggtggctataatcacatcgagaatggttcaactataaatatgattctgtccttgtgtttgaaatgcttaacactgtgttaatttttaacatgtgacagCCAAATACACGTATACGGATAAATAGCATTATGGGCTATGAAAACTACCCAAAAGTTACTATGGACGATATCAAATCAGACGAACCCGAATCATGAACAT

- -gtggcta
- - - - - -aatcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgtgtt