Sequence
atgc intronic sequence ATGC exonic sequenceTATTGTGGCAGTTGATTCTTGGGATCGTCAGTCTCGATATCCATCAGGCCATTATGTGCGAACTATAGGGGAGATAGGTGATAGAGATACTGAAAGCGAGgtatggaaaattggattttgtatgatttctctctttgtatgaatagtgggaaaaacaatgaatgagtatgtggcaacttctacttattgctataatgttt...
Basic information
species | Glycine max |
transcript | GLYMA04G39980.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G39980.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g03710.1 (Oryza sativa), 5'ss of exon 9
---------------------------------------------TATTGTGGCAGTTGATTCTTGGGATCGTCAGTCTCGATATCCATCAGGCCATTATGTGCGAACTATAGGGGAGATAGGTGATAGAGATACTGAAAGCGAGgtatggaaaattggattttgtatg-atttctctctttgtat--gaatagtgggaaaaacaatgaatgagtatgtggcaacttctacttattgctataatgttt-------------
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TCGAATTCAAACTAGACAGCTTGGCAATCTTCTGGACAAAAGGATTATTGTTGCAGTTGATTCATGGGATGTCTTGTCTCGATACCCATCAGGACATTATgtacggactataggagatattggtgacaaagatactgaaacagaggcaagtcttacaattttacagctgcatttcacactttgtgttgcaacatttacttttactatgtaggagcatgcactgatgctaatgtgctaa-gtgatatttgtgcgtggaacag
upper sequence: GLYMA04G39980.1 (Glycine max), 5'ss of exon 9
lower sequence: AT2G17510.1 (Arabidopsis thaliana), 5'ss of exon 9
TATTGTGGCAGTTGATTCTTGGGATCGTCAGTCTCGATATCCATCAGGCCATTATGTGCGAACTATAGGGGAGATAGGTGATAGAGATACTGAAAGCGAGgtatggaaa-attggattttgtatgatttctctctttgtatgaat--agtgggaaaaacaatgaatgagtatgt-ggcaacttctacttattgctataa-tgttt-----------------------------------------------
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AGTAGTGGCAGTTGATTCCTGGGACCGTCAATCTCGATATCCTTCTGGTCATTACGTACGACCAATCGGCAAAATAGGTGACAAGGAAACTGAAACAGAGgtaagggatcatattaatttattcgatt-ctattctagtaggagttaggtgggcaagagtaggaa-aagtatattggtttcctttcttcagagaagtaactgatttagataattgaatataacatcaatactctttcttgtgaatgctgcag
upper sequence: GLYMA04G39980.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv07s0031g02190.t01 (Vitis vinifera), 5'ss of exon 9
TATTGTGGCAGTTGATTCTTGGGATCGTCAGTCTCGATATCCATCAGGCCATTATGTGCGAACTATAGGGGAGATAGGTGATAGAGATACTGAAAGCGAGgtatggaaaattggattttgtatgatttctctctttgtatgaatagtgggaaaaacaatgaatgagtatgtggcaacttctacttattgctataatgttt
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TATTGTGGCAGTTGATTCATGGGATTGTCTATCACGATATCCTTCTGGTCATTATGTGCGTACTATAGGAGAAATAGGTGATAGAGATACTGAAAGTGAGgtacgtag----gaattttgcaagatgatt-------aatgactga--ggaacaagtttagatgaatctgatacatatcacctatgtggatgtggcag--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|18735584|gb|BM528847.1|BM528847EST: ATTATGTGCGAACTATAGGGGAGATAGGTGATAGAGATACTGAAAGCGAG GTGGTTTTGATAGAAAATGATATAAATACACGGCCATTCTCTTCACAAGTG
genomic: ATTATGTGCGAACTATAGGGGAGATAGGTGATAGAGATACTGAAAGCGAGgtatggaaaa ... tacaaaatagGTGGTTTTGATAGAAAATGATATAAATACACGGCCATTCTCTTCACAAGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATTGTGGCAGTTGATTCTTGGGATCGTCAGTCTCGATATCCATCAGGCCATTATGTGCGAACTATAGGGGAGATAGGTGATAGAGATACTGAAAGCGAGgtatggaaaattggattttgtatgatttctctctttgtatgaatagtgggaaaaacaatgaatgagtatgtggcaacttctacttattgctataatgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggaaaaa