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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaatgattgaaacttgatattagatgcatttgagttttgcatagggaaagcaataaatattgcaccgtatgttgctgaataatgatgtcttaga...

Basic information

species Glycine max
transcript GLYMA02G12930.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G12930.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv01s0011g00620.t01 (Vitis vinifera), 5'ss of exon 5
GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaatgattgaaacttgatattagatgcattt---gagttttgcatagggaaagcaataaatattgcaccgtatgttgctgaataatgatgtcttaga
|||||| |||| || ||||||||||||||||||||| |||| ||||||||||||||||||||||| ||||||||||| || ||||| || || ||||||||||    |  |    |||||  |    |  | |||||    | | | | | |  | ||   ||         |    ||| |    | ||   | |  ||   
GACACCTTGAGCGAGGAGTCATACAAGGACAGCACTCTGATTATGCAGCTGTTGAGAGACAACCTCACTCTCTGGACCTCTGATTTGCCTGAAGATGGAGgtactgtatggccaaaaactaaagcaaatctacatttcgaaaatatggtacataggaacacatgggagccatagacaatggtaggcattagacaagagtt---

upper sequence: GLYMA02G12930.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S67_176V6.1 (Physcomitrella patens), 5'ss of exon 5
GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaatgattgaaacttgatattagatgcatttgagttttgcatagggaaa-gcaataaatattgcaccgtatgttgctgaataatgatgtcttaga-------------------------------------------------------------------------------------------------
|| ||  ||||||||||||| |||||||||||||| |||||||||||| || |||| || || || ||| | ||||| || ||| | |  ||||| ||||||||   | |  ||||    ||   |    |  | ||| |   ||  | |      | |    || |         |||||  |  |   ||||   |  |                                                                                                 
GATACGTTGAGTGAAGAGTCGTACAAGGACAGCACATTGATCATGCAGTTGCTGAGGGATAATCTGACTTTGTGGACATCGGATCTCCAGGAGGAGGGAGgtattgtactcgttgatcgctgcagtggtttatagttgtgggatgagttgtactgtggagctgatgt-atgatacttgttgacgggtttggatgctctgaagtttgctttgattgtttgtattgaagcgcacttaaaaacagaaatggtcgaagaggatgtttgagcttggtgctgaatcgatgggttgtgcgttcag

upper sequence: GLYMA02G12930.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S348_15V6.1 (Physcomitrella patens), 5'ss of exon 5
GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaatgattgaaacttgatattagat-gcatttgagttttgcatagggaaagcaa-taaatattgcaccgta-tgttgctgaataatgatgtcttaga-
|| ||  |||| || ||||| |||||||||||||| ||||||||||||||  | || |||||||| ||||| ||||| || ||| | |  ||||| ||||||  |   | |  ||   |     | | | | ||   ||     || ||||||| ||    |     |||  |  |  ||    ||  ||  |  |  |  || 
GATACGTTGAGCGAGGAGTCGTACAAGGACAGCACGTTGATCATGCAGCTACTAAGGGACAACCTGACTCTGTGGACGTCGGATCTGCAGGAGGAGGGAGgtgggtagacgtgtggcgcggtgcagtggtttgcgggtgga---tggatagggagagggggtgtgggttgtgcgttggtgggagtgtgtagcgg-gcgtgtgat

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|7795610|gb|AW781007.1|AW781007
EST:     TTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGANGAATG-AG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: TTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGA-TGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|37994792|gb|CF806381.1|CF806381
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|207817655|gb|GD791016.1|GD791016
EST:     AGAGACAACCTTACTCTCTGGACTTCCGATTTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: AGAGACAACCTTACTCTCTGGACTTCCGA-TTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|207727273|gb|GD700885.1|GD700885
EST:     AGAGACAACCTTACTTCTCTTGGTACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: AGAGACAACCTTAC-TCTC-TGG-ACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|12689676|gb|BG156012.1|BG156012
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|18690824|gb|BM519672.1|BM519672
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|7284525|gb|AW597114.1|AW597114
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|31468373|gb|CD410401.1|CD410401
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|193448250|gb|FK415873.1|FK415873
EST:     GACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCGGAGCCTGAG
genomic: GACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|7692312|gb|AW760421.1|AW760421
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAANCTGAAGAAGCCAAACCTTCTGAGCCTGAN
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|57574121|gb|CX547096.1|CX547096
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|192326726|gb|FK018883.1|FK018883
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         -TGAGGACAACATAACAGCTGA-GAAGC
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGC
EST: gi|208072943|gb|GD868526.1|GD868526
EST:     AGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: AGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|208227133|gb|GE022372.1|GE022372
EST:     AGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: AGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
EST: gi|7924046|gb|AW830054.1|AW830054
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGA
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGA
EST: gi|38193306|gb|CF922512.1|CF922512
EST:     GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAG                         GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaat ... tctcgtgcagGTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTTACTCTCTGGACTTCCGATTTACCAGAGGATGGAGgtatgagaatgattgaaacttgatattagatgcatttgagttttgcatagggaaagcaataaatattgcaccgtatgttgctgaataatgatgtcttaga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA