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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcttccttatatcctgctttatccaattgactgggcattaggaataaatcttcttgtttggttcttatctcctaattcttgatgtggtttactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGCCAAACCTTGGTTGAAACGTTTATGGAAAAGCTAGGTTGATTAATGAGTG

Basic information

species Glycine max
transcript GLYMA10G35210.1
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35210.1 (Glycine max), 3'ss of exon 22
lower sequence: AT3G54860.2 (Arabidopsis thaliana), 3'ss of exon 22
ttcttccttatatcctgctttatccaattgactgggcattaggaataaatcttcttgtttggttcttatctcctaattcttgatgtggtttactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGCCAAACCTTGGTTGAAACGTTTATGGAAAAGCTAGGTTGATTAATGAGTG
        ||||||   ||| |     ||  |     |  |  | |   | |    | |   | ||    || |  ||||  ||    ||   ||  ||||| |||||||| |||||||||||| |||| ||||||||||| ||||| |||  ||| ||| | ||||| || |||||||| ||||| ||||   | |   
-----gtatatatcaaacttcaaaagtttaccataaaaaaaacactctttttgtccgctgaatcctccattcttgcttctgcataaaatt---ttatcagGAAGGAATGGCTTATGATTTGATTGTTGCCACAACAAAAATCGTCAACGGCGCAACGTTGATAGAAACATTCATGGAAAAACTAGGCTGATCCGTAAACT
















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|192303192|gb|FG997768.1|FG997768
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|192334522|gb|FK024481.1|FK024481
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|192301842|gb|FG997700.1|FG997700
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|213605266|gb|DB978740.1|DB978740
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|120493752|gb|EH221919.1|EH221919
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|120493838|gb|EH222005.1|EH222005
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACGAAAATAGTCAATGGC
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|208204532|gb|GE006497.1|GE006497
EST:     GGGCGTTACCTTTGCAGAGATTTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGCGTTACCTTTGCAGAGA-TTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|208086974|gb|GD883340.1|GD883340
EST:     GGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTT-ATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|208031379|gb|GD830327.1|GD830327
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|208275482|gb|GE078186.1|GE078186
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTAGAATTATTGCAACAACAAAAATAGTCAATG
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTT-GA-TTATTGCAACAACAAAAATAGTCAATG
EST: gi|193635447|gb|FK582574.1|FK582574
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
EST: gi|192303193|gb|FG997769.1|FG997769
EST:     GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAG                         GAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC
genomic: GGGGCGTTACCTTTGCAGAGATTTCTGCACTTCGATTTTTATGTACTCAGgtgtgtcata ... tactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaatcttcttgtttggttcttatctcctaattcttgatgtggtttactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGCCAAACCTTGGTTGAAACGTTTATGGAAAAGCTAGGTTGATTAATGAGTG
                                           tttacttt  CT-rich tract
                            taattctt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcttccttatatcctgctttatccaattgactgggcattaggaataaatcttcttgtttggttcttatctcctaattcttgatgtggtttactttgcagGAGGGAATGGCATATGATTTGATTATTGCAACAACAAAAATAGTCAATGGCCAAACCTTGGTTGAAACGTTTATGGAAAAGCTAGGTTGATTAATGAGTG

ttcttcc
- - - - - - tcctgct
- - - - - - - - - - - - - -ttgactg
- - - - - - - - - - - - - - - - - ggcatta
- - - - - - - - - - - - - - - - - - - - -ggaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - cttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgtgg