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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGGATCTTGATGTTCTTTTCTATCCTTGTCCAAGAAATGGCCCAAATTTCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattgattccttaaatcaaacaacaaaacaaaattagttttttgttatgatttctgatgtattttagaaagatgggattaaagttgactaatctaa...

Basic information

species Glycine max
transcript GLYMA0084S00210.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA0084S00210.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0007g03250.t01 (Vitis vinifera), 5'ss of exon 5
TTTGGATCTTGATGTTCTTTTCTATCCTTGTCCAAGAAATGGCCCAAATTTCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattgattccttaaatcaaacaacaaa-acaaaattagttttttgttatgatttctgatgtattttagaaag-atgggattaaagttgactaatctaa
  |||||||||||||||| || ||||| || ||||||||||| |||||||||||||  ||||||    |||||||||| |||| ||||||||| ||||||||  |||    | | ||  |       |||  ||||     | |     ||| ||    | |||  |  | |     || |    ||     | ||   |  
GCTGGATCTTGATGTTCTGTTTTATCCGTGCCCAAGAAATGGTCCAAATTTCCGTCCCAAGGTTGCTCAGATGGGTGGAAAACAGCAGTTCCCTTACATGgtttgataacattcctatgtttcgtttcaattacaatccctgctgcaaattaagaaaaatcatgagtcatggctgttatagtgggaagaaaaagtacatt--
















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|151395373|gb|EV265244.1|EV265244
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|31466766|gb|CD408794.1|CD408794
EST:     CGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: CGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|120495419|gb|EH223586.1|EH223586
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCC-TACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGACTCAGATGACTTAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|120529421|gb|EH257555.1|EH257555
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTC
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTC
EST: gi|120495393|gb|EH223560.1|EH223560
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|213615448|gb|DB965520.1|DB965520
EST:     AACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: AACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|19348874|gb|BM893406.1|BM893406
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|120529743|gb|EH257877.1|EH257877
EST:     GTCAAAA-GTTCTAGAGATGGGTGGCAAACTGCAGTTCCCNTACATG                         GTTGACCCNAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: GTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|192299755|gb|FG990050.1|FG990050
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|10231986|gb|BE800874.1|BE800874
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATT
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATT
EST: gi|192314929|gb|FK010747.1|FK010747
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|214009602|gb|DB988311.1|DB988311
EST:     CTGGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: C--GTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|51343312|gb|CO984045.1|CO984045
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|120494745|gb|EH222912.1|EH222912
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|120529184|gb|EH257318.1|EH257318
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
EST: gi|213587655|gb|DB971378.1|DB971378
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCG
EST: gi|9902884|gb|BE611852.1|BE611852
EST:     TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATG                         GTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG
genomic: TCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattga ... ttggtttcagGTTGACCCAAACACAGGCGCTTCAATGTATGAATCAGATGACATAATTCGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTGGATCTTGATGTTCTTTTCTATCCTTGTCCAAGAAATGGCCCAAATTTCCGTCAAAAGGTTCTAGAGATGGGTGGCAAACTGCAGTTCCCCTACATGgtaagattgattccttaaatcaaacaacaaaacaaaattagttttttgttatgatttctgatgtattttagaaagatgggattaaagttgactaatctaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaaaa