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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTGTATGTTGCCAACCGAGCATCGGACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttcttttaatcctatcactcttgtgtaaatgccaaattgttgtgtaattatggtgatttgttcctatcattattaatagcctggatttgattgc...

Basic information

species Glycine max
transcript GLYMA04G08200.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G08200.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os06g04800.1 (Oryza sativa), 5'ss of exon 2
GAGTGTATGTTGCCAACCGAGCATCGGACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttcttttaatcctatcactcttgtgtaaatgccaaattgttgtgtaattatggtgatttgttcctatcattattaatagcctggatttgattgc--
|| ||||||| || ||||| ||||| |||||||| ||||| || ||||| ||||| ||||| || ||||||||||| |||  || | |  | |  |   | ||||| |       |    |||||| |  ||   || |||  |   |    | |  || |  ||   ||   |     
GAATGTATGTGGCGAACCGTGCATCTGACAAAATTACTCAACTGACTGACAATGTGTACGTCTGCCGCTCTGGATCTgtaa-gtgcctacattgtttagagtcttgggcccccttctttatgttgt-tgcttcgtgttattattatatgctgtaaaaaacatactctcttcattaagca

upper sequence: GLYMA04G08200.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os02g53060.2 (Oryza sativa), 5'ss of exon 2
GAGTGTATGTTGCCAACCGAGCATCGGACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgta--ttgttcttttaatcctatcactcttgtgtaaatgccaaattgttgtgtaattatggtgatttgttcctatcattattaatagcctggatttgattgc---
|| ||||||| || ||||| || |||||||| || |||||||| ||||| ||||| ||| | || ||||||||||| |||  |   | | |||      | |||| | | | | ||     |  ||||   | | |||  ||  | |  |   |  || |  ||| |    || ||      
GAATGTATGTGGCAAACCGTGCGTCGGACAAGATTACTCAGCTAACTGACAATGTGTACATCTGCCGCTCTGGATCTgtaagtatctatattagggactttactcctttttca-tgttgtctcattgt---actgtggccataagatattgggaa-atcacgagcttcctattcatcaagtt

upper sequence: GLYMA04G08200.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0008g02850.t01 (Vitis vinifera), 5'ss of exon 2
GAGTGTATGTTGCCAACCGAGCATCGGACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttcttttaatcctatcactcttgtgtaaatgccaaattg--ttgtgtaattatg-gtgatttgttcctatcattattaatagcctggatttgattgc
|| ||||||| || ||| ||||||||||||||||||| ||||| || |||||||| ||| | |||||||||||||||||| |  ||||||      || |   |    || |      ||||  | || ||| | |   | |  |       | ||    || |   |  |||| ||   
GAATGTATGTCGCTAACAGAGCATCGGACAAAATCACACAGCTGACAGATAATGTCTACATTTGTCGCTCTGGATCGgtactcctcttttcgaatcattaacttgccctacagctgtgattgaatcgtttaactctctataacattgagaattgatctaaaacatgtttaatttcat---

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|10709899|gb|BF009623.1|BF009623
EST:     ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|58022364|gb|CX709105.1|CX709105
EST:     AAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: AAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|58022573|gb|CX709314.1|CX709314
EST:     AAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: AAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|58016325|gb|CX703067.1|CX703067
EST:     ACAAAATCACTCAGCTCACTGATAANGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|298174239|gb|HO017575.1|HO017575
EST:     ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|23730341|gb|BU763264.1|BU763264
EST:     ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|254320191|gb|GR829379.1|GR829379
EST:     ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|213619813|gb|DB969477.1|DB969477
EST:     ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|33388670|gb|CA851877.1|CA851877
EST:     GTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: GTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|298192887|gb|HO033321.1|HO033321
EST:     ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GTTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|15813603|gb|BI785878.1|BI785878
EST:     ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
EST: gi|58019397|gb|CX706139.1|CX706139
EST:     ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCG                         GCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA
genomic: ACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttct ... ctttttacagGCTGCTGATTCTCAGATTGTCTCTGATTATGTGCGTTACTTCCTCCATCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTGTATGTTGCCAACCGAGCATCGGACAAAATCACTCAGCTCACTGATAATGTATACGTGTGTCGCTCTGGATCGgtattgttcttttaatcctatcactcttgtgtaaatgccaaattgttgtgtaattatggtgatttgttcctatcattattaatagcctggatttgattgc

- - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - -  AGCTCA