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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGCAAGCAAGCATACATGCGCGGCAAGAGGGTTCTTGAGATCAATCCTAGGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattctagattattagaacattttctgaggcatctctttcctcaactcaaatggggtttatctgttaacacaatctgctttacttttcag

Basic information

species Glycine max
transcript GLYMA14G40320.2
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 5'ss of exon 14
TAGCAAGCAAGCATACATGCGCGGCAAGAGGGTTCTTGAGATCAATCCTAGGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgta------cattctagattattagaacattttctgaggcatctc-tttcctcaactcaaatggggtttatctgttaac--acaatctgctttacttttcag----
 |||||||| || |||||||||||||||||||| || |||||||| || |||||||| || |||||||| ||||| || |  || |   || ||   ||||||      | |  |||||    | ||   |  || |    | || |||| |    || ||    ||  |      |||  |   | |  |  | | || |     
CAGCAAGCAGGCGTACATGCGCGGCAAGAGGGTACTCGAGATCAACCCCAGGCACCCCATCATCAAGGAACTCCGTGACAAGGTCGCCCAGGACAGCGAGgtactgaagcttattagatcgacaaaaacctcactaatatttatcatttctttgcttccaaatacgtcgaaaaaaaaacttatggttttgtgcaatcttgatgcag

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G399073_T03 (Zea mays), 5'ss of exon 14
TAGCAAGCAAGCATACATGCGCGGCAAGAGGGTTCTTGAGATCAATCCTAGGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtac------attctagattattagaac-------attttctgaggcatc---tctttcctcaactcaaatggggtttatctgttaacacaat-ctgctttacttttcag-------------------------
 |||||||| || |||||||||||||||||||| || |||||||| || |||||||| || |||||||||||||| || |  || |   || ||   |||||||      |   ||| |   |  | |         |   | |  |||     ||  | |  |  |    | || | |  ||  ||||| || ||| ||   || |  |                         
GAGCAAGCAGGCGTACATGCGCGGCAAGAGGGTGCTGGAGATCAACCCCAGGCACCCCATCATCAAGGAGCTCCGCGACAAGGTCGCCCAGGACAACGAGgtacctaattaccttagctagctctagctgcacttgctcgttaaaccatgggagctagcatgcatgcgtgggaggatgaaatga-aacacgatgctgattcgtttgttcgttggttcgtaaaacaacaacaacag

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G141931_T02 (Zea mays), 5'ss of exon 14
TAGCAAGCAAGCATACATGCGCGGCAAGAGGGTTCTTGAGATCAATCCTAGGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtac---attctagat-tattagaacattttctgaggcatctctttcctcaactcaaatggg-gtttatctgttaacacaatctgctttact--tttcag----------------
 |||||||| || |||||||||||||||||||| || |||||||| || |||||||| || |||||||||||||| || |  || |   || ||   |||||||   |   ||  |  | |   |  |  ||  | |   | |   |   ||| |  ||  | |      |||| |  |  |      |  |  || ||                 
GAGCAAGCAGGCGTACATGCGCGGCAAGAGGGTGCTCGAGATCAACCCCAGGCACCCCATCATCAAGGAGCTCCGCGACAAGGTCGCCCAGGACAACGAGgtaccttaccttacctgcactttgatttgctcgtaaggggcacacacacgaacccgcatacgtgggaggatgttgattcgtttgttcgtgttgattgcaacgtaaaacaacaacag

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 14
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 5'ss of exon 14
TAGCAAGCAAGCATACATGCGCGGCAAGAGGGTTCTTGAGATCAATCCTAGGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattctaga--ttattagaacattttctgaggcatctctttcctcaactcaaatggggtttatctgttaacacaatctgctt------tacttttcag-
 |||||||||||||| ||||| ||||||||||| |||||||| || || ||||| || || ||||||||||| |  || |||||||||||| ||  |||||||  || ||||   | ||    ||||| || |    ||| |    |   || | |    | |||| |   | ||       |||      ||  |||  | 
CAGCAAGCAAGCATATATGCGTGGCAAGAGGGTGCTTGAGATAAACCCAAGGCATCCGATCATCAAGGAGCTTCAGGAAAGAGTAGTAAAGGACAGTGAGgtatgttttagagacttttttgtcatttacttaattgtctatgcattt--cttataacctggttatgtaggagcatggcacacttaaaatgtatctttatga

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|17963785|gb|BM270530.1|BM270530
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|254328196|gb|GR835161.1|GR835161
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|213592973|gb|DB983373.1|DB983373
EST:     CAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: CAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|42722966|gb|CK768865.1|CK768865
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|192307635|gb|FG999674.1|FG999674
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|151398470|gb|EV268341.1|EV268341
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|7234397|gb|AW569735.1|AW569735
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|7795115|gb|AW780512.1|AW780512
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGATGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|7233245|gb|AW568593.1|AW568593
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|192307636|gb|FG999675.1|FG999675
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|6201082|gb|AW153182.1|AW153182
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTTAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|33390550|gb|CA853745.1|CA853745
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|4306807|gb|AI443957.1|AI443957
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|7795342|gb|AW780801.1|AW780801
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAN                         GATGANGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|298164866|gb|HO010863.1|HO010863
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|5760776|gb|AI966139.1|AI966139
EST:     GGCACCCTATTATCAAGGAGCTCCGTTAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|298185056|gb|HO030269.1|HO030269
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|16282387|gb|BI944989.1|BI944989
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|4299465|gb|AI442908.1|AI442908
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|13788894|gb|BG651485.1|BG651485
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|254343167|gb|GR859329.1|GR859329
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|37995336|gb|CF806925.1|CF806925
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCA
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCA
EST: gi|42723040|gb|CK768939.1|CK768939
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|23726943|gb|BU761483.1|BU761483
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|13788861|gb|BG651452.1|BG651452
EST:     GTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|192301694|gb|FG997622.1|FG997622
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTGGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|21602387|gb|BQ612718.1|BQ612718
EST:     GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: GGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
EST: gi|209716278|gb|BW657581.1|BW657581
EST:     CAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAG                         GATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT
genomic: CAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattcta ... tacttttcagGATGAGGGTGTGAAGCATACAGCACAGCTGATGTACCAGACTGCACTCTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGCAAGCAAGCATACATGCGCGGCAAGAGGGTTCTTGAGATCAATCCTAGGCACCCTATTATCAAGGAGCTCCGAGAGAGAGTAGTAAAGAACCCTGAGgtacattctagattattagaacattttctgaggcatctctttcctcaactcaaatggggtttatctgttaacacaatctgctttacttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC