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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGACCTGAAGCCAGGAGCTGAAGTAACAATAACTGGACCTGTTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgatagaaaacgaatatggtatatgtgatggtcatgattgttgctctgatcttcaccattgatcattgaaattttcttcacag

Basic information

species Glycine max
transcript GLYMA02G05350.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G05350.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G66190.2 (Arabidopsis thaliana), 5'ss of exon 5
GTGACCTGAAGCCAGGAGCTGAAGTAACAATAACTGGACCTGTTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgatagaa-aacgaatatggtatatgtgatggtcatgatt--gttgc-tctgatcttcaccattgatcattgaaattttcttcacag---------
||||| ||||||| || | |||||  |  || |||||||||||||| || |||||||||||||||||||| || |||||||||||||||||||||   | ||| |    ||       |     |   |  ||  |||  || |  | |  ||  |||   |  | ||| |  | | |||  | |         
GTGACTTGAAGCCGGGTGATGAAGCTAAGATCACTGGACCTGTTGGCAAGGAAATGCTTATGCCAAAAGACCCCAATGCCACCATCATCATGgtatggtcatatattggcgtgctcacttagattagagagcagaatttagtggtatatagtcaacacttgtagtgatt-acttctgcttttctgtttccttag

upper sequence: GLYMA02G05350.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0023g03510.t01 (Vitis vinifera), 5'ss of exon 5
GTGACCTGAAGCCAGGAGCTGAAGTAACAATAACTGGACCTGTTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtac-attgatagaaaacgaatatggtata-tgtgatggtcatgattgttgctctga---tcttcacc--attgatcattgaaat----tttcttcacag---
||||| ||||||| || || ||||| |  || || || ||||| ||||||||||||||||||||||| |||||||||||||| ||||| ||||||  ||| ||     | | || ||   || ||  |||||  | || |||   |  |   | ||   |  ||  ||  ||  ||     ||||||||  |   
GTGACTTGAAGCCTGGGGCCGAAGTGAAGATTACAGGGCCTGTGGGGAAAGAAATGCTTATGCCAAAGGATCCAAATGCCACAATCATAATGgtattattcattctcca-gcatttgtcctaatgctatggttgtaatggttttccaaaatgtattagtcgtatgtattgttacaacatgatttcttcattgcag

upper sequence: GLYMA02G05350.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0001g14450.t01 (Vitis vinifera), 5'ss of exon 5
GTGACCTGAAGCCAGGAGCTGAAGTAACAATAACTGGACCTGTTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacatt--gatagaaaacgaata--tggtatatgtgatggtcatga-ttgttgctctgatcttcaccattgatcattgaaattttcttcacag
||||| ||||||| || ||||| || | ||| || |||||||||||||||||||||||||||||||||||||||||||||||  |||| |||||   ||  | |  |  |  |  |       | ||| |||   || |  |||| || |||        | |  | |  | |||  ||||  |||
GTGACTTGAAGCCTGGGGCTGATGTCAAAATCACAGGACCTGTTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACTGTCATAATGgtgagttctgcttcagtatcaccaaccatcttctgttatgtcaatcagctgtttctttga-----gaaagtattgaaagcaatcatctt-gcag

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|7796286|gb|AW781683.1|AW781683
EST:     TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
EST: gi|120496376|gb|EH224543.1|EH224543
EST:     TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
EST: gi|120533254|gb|EH261387.1|EH261387
EST:     TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATT
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATT
EST: gi|151409217|gb|EV279025.1|EV279025
EST:     TTGGGAAAGAA-TGCTTATGCCAAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGA
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGA
EST: gi|213604735|gb|DB956090.1|DB956090
EST:     TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
EST: gi|20812572|gb|BQ297050.1|BQ297050
EST:     TTGGGAAAGAAATGCTTATGCCCAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGAAACGGGATTGCCCCATTTCGCTCATTTTTATGGAAA
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAA
EST: gi|11413683|gb|BF425694.1|BF425694
EST:     TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
EST: gi|5058465|gb|AI736876.1|AI736876
EST:     TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGAACCGNGATTGCCCCATTTCGCTCATTNTTATGGAAAATG
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
EST: gi|13562564|gb|BG550784.1|BG550784
EST:     TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
EST: gi|192317372|gb|FK007494.1|FK007494
EST:     TTGGGAAAGAA-TGCTTATGCCAAA-GATCCAAATGCCACCATCATCATG                         TTGGGAACTGGA-CCGG-AT-GCCC-ATTTCGCTC
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTC
EST: gi|209714818|gb|BW657360.1|BW657360
EST:     TTGGGAAAGAAATGCTTATGCCAATA--TCCAAATGCCACCATCATCATG                         TTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
EST: gi|120533554|gb|EH261687.1|EH261687
EST:     TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATG                         TTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG
genomic: TTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgat ... ttcttcacagTTGGGAACTGGAACCGGGATTGCCCCATTTCGCTCATTTTTATGGAAAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGACCTGAAGCCAGGAGCTGAAGTAACAATAACTGGACCTGTTGGGAAAGAAATGCTTATGCCAAAAGATCCAAATGCCACCATCATCATGgtacattgatagaaaacgaatatggtatatgtgatggtcatgattgttgctctgatcttcaccattgatcattgaaattttcttcacag

- - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - AAGAAA