Sequence
atgc intronic sequence ATGC exonic sequence...tggatgtccccaattatggaatttgatattttaatattctttcttacgtttatatcttttgcttaatttatttataaattgtacattacatatcatgcagGAAAAACCTCACTTGTTCCAGTTTGTTCCAAATGAGAAGCAG
Basic information
species | Glycine max |
transcript | GLYMA16G29580.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G29580.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g12550.1 (Oryza sativa), 3'ss of exon 3
tggatgtc-cccaattatggaatttgatattttaatattctttcttacgt-ttatatcttttgcttaatttatttat-aaattgtacattaca--tatcatgcagGAAAAACCTCACTTGTTCCAGTTTGTTCCAAATGAGAAGCAG
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---ccatcacacacacatacactatgctagtc--attttcatatctgcgtatcaaacatttagcatcttgtattcatcatattccctgtaattgttatttttcagGAAAAACCTCAAATGTTCCAGTTTGTTCCAAGTGAAAAGCAG
upper sequence: GLYMA16G29580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G097959_T01 (Zea mays), 3'ss of exon 3
tggatgtccccaattatgg-aatttgatattttaatattctttcttacgtttatatcttttgcttaatttatttataaattgtacattacatatcatgcagGAAAAACCTCACTTGTTCCAGTTTGTTCCAAATGAGAAGCAG
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-ggatggagggagtaacaccagcatttttagtccgcattatttgttatgtatgacttgcactcatgttctatttgtaagattaaaaataaattttctgcagGAAAAGCCTCACATGTTCCAGTTTGTTCCAAATGAAAAGCAG
upper sequence: GLYMA16G29580.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G62650.1 (Arabidopsis thaliana), 3'ss of exon 3
tggatgtccccaattatggaatttgatattttaatattctttcttacgtttatatcttttgcttaatttatttataaattgtacattacatatcatgcagGAAAAACCTCACTTGTTCCAGTTTGTTCCAAATGAGAAGCAG
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-----gtatgccttgattggaactagtatctt---gttatatactacatttgaattgtacgagaggctgagttttaatt-----gtttcattttcctcagGAGAAACCTCACTTATTTCAGTTTGTTCCAAATGAGAGACAG
upper sequence: GLYMA16G29580.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0050g01470.t01 (Vitis vinifera), 3'ss of exon 3
tggatgtccccaattatggaatttgatattttaatattctttcttacgtttatatcttttgcttaatttatttataaattgtacattacatatcatgcagGAAAAACCTCACTTGTTCCAGTTTGTTCCAAATGAGAAGCAG
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ttatttagaaggtttcctgaactttttatattttgttgggtttctatcttggttcttttttctggactaacttacacattgtttgccatgtgcaattcagGAAAAACCTCACTTATTCCGGTTTGTTCCAAATGAGAAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acgtttatatcttttgcttaatttatttataaattgtacattacatatcatgcagGAAAAACCTCACTTGTTCCAGTTTGTTCCAAATGAGAAGCAG
tatatcttttgcttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggatgtccccaattatggaatttgatattttaatattctttcttacgtttatatcttttgcttaatttatttataaattgtacattacatatcatgcagGAAAAACCTCACTTGTTCCAGTTTGTTCCAAATGAGAAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - tgtcccc