Sequence
atgc intronic sequence ATGC exonic sequenceCTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGCCAATATATGTTGGTTATCATAGCGCAGATGTTTGGGCAAATAAGAAACAGTTTTTACTGgttagcagttcctaaagaatgtctcagaagtgtgatctaacctgttcttttttggagcatattgtaccttttgatcataaaataatctctatttatctggcag
Basic information
species | Glycine max |
transcript | GLYMA06G15140.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G15140.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os07g43390.1 (Oryza sativa), 5'ss of exon 7
CTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGCCAATATATGTTGGTTATCATAGCGCAGATGTTTGGGCAAATAAGAAACAGTTTTTACTGgttagcagttcctaaagaatgtctcagaagtgtgatctaacctgttcttttttggagcatattgtaccttttgatcataaaataatctctatttatctggcag
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ATATGCAAAGAAGTTGGGTATCAGCATAATGGGTGACATGCCCATATATGTTGGCTACCATAGTGCAGATGTTTGGGCAAACAGGAAATCGTTTTTGCTGgt--acacctcaataattttccctcatagtcatgtgtcatcggattctt------aaaatgctatacattctgtttcttgattgtttttt-ctggtgtaaag-
upper sequence: GLYMA06G15140.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G013811_T01 (Zea mays), 5'ss of exon 7
CTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGCCAATATATGTTGGTTATCATAGCGCAGATGTTTGGGCAAATAAGAAACAGTTTTTACTGgttagcagttcctaaagaatgtctcagaagtgtgatctaacctgttcttttttggagcatattgtaccttt-tgatcataaaataatct-ctatttatctggcag-
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ATATGCACAAAAGCTGGGTATCAGCATCATGGGTGACATGCCTATATATGTTGGCTACCATAGCGCAGATGTTTGGGCGAACAGGAAATCATTTTTGCTGgtatgc----ctcaattattttctcaaa---gcaatcttacttttattgtttgggaacttgtaataattgtgttatggttctttactgtgctctctggttgtaaag
upper sequence: GLYMA06G15140.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G100730_T01 (Zea mays), 5'ss of exon 1
CTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGCCAATATATGTTGGTTATCATAGCGCAGATGTTTGGGCAAATAAGAAACAGTTTTTACTGgttagcagttcctaaagaatgtctcagaagtgtgatctaacctgttcttttttggagcatattgtacct-tttgatcataaaataatct-ctatttatctggcag-
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ATATGCACAAAAGCTGGGTATCTACATCATGGGTGACATGCCTACATATGTTGGCTACCATAGTGCAGATGTTTGGGCGAACAGGAAATTATTTTTGCCGgtatac----ctcaattattttctcaaa---gcaatcttgcttttattgtttgggaacatgtaatagttgttttatggttttttactatgctctctggttgcaaag
upper sequence: GLYMA06G15140.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G64860.1 (Arabidopsis thaliana), 5'ss of exon 7
CTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGCCAATATATGTTGGTTATCATAGCGCAGATGTTTGGGCAAATAAGAAACAGTTTTTACTGgttagcagttcctaaagaatgtctcagaagtgtgatctaacctgttcttttttggagcatattgtaccttttgatcataaaataatctctatttatctggcag-------
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GTATGCACGGCGGCAAGGAGTTGATATAATGGGAGATATGCCCATTTATGTAGGATATCACAGTGCAGACGTTTGGGCAAATAAGAAACATTTCTTACTGgcaagtaaattttaacatatgg---aggcaaacagttttatcatatgtaccaggaagaaaattagtctttcc---tgaaagtcgctctttttttgttttgctttacacag
upper sequence: GLYMA06G15140.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv07s0031g01540.t01 (Vitis vinifera), 5'ss of exon 7
CTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGCCAATATATGTTGGTTATCATAGCGCAGATGTTTGGGCAAATAAGAAACAGTTTTTACTGgttagcagttc-ctaaagaatgtctcagaagtgtgatctaacctgttcttttttggagcatattgtaccttttgatcataaaataatctctatttatctggcag
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CTATGCGCAGATGAAAGGAATCAAGATAATGGGAGACATGCCCATTTATGTGGGTTATCACAGTGCAGATGTGTGGGCAAATAAGAAACATTTTTTACTGgttagtagttctcttcattaactttaagaaatcttaataatctagtcatgacct----tccattctgagttctactgacaaatta---tccctttgt-tggcagMapped 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|298196160|gb|HO044551.1|HO044551EST: TTGGTTATCATAGCGCAGATGTTTGGGCAAATAAGAAACAGTTTTTACTG AACAGGAAGGGCTTTCCTCTTTTAGTTAGTGGTGTTCCTCCTGACGCATTC
genomic: TTGGTTATCATAGCGCAGATGTTTGGGCAAATAAGAAACAGTTTTTACTGgttagcagtt ... tatctggcagAACAGGAAGGGCTTTCCTCTTTTAGTTAGTGGTGTTCCTCCTGACGCATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGCCAATATATGTTGGTTATCATAGCGCAGATGTTTGGGCAAATAAGAAACAGTTTTTACTGgttagcagttcctaaagaatgtctcagaagtgtgatctaacctgttcttttttggagcatattgtaccttttgatcataaaataatctctatttatctggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA