Sequence
atgc intronic sequence ATGC exonic sequence...ttaacttgaagttaaagatatcatttaatattttgctcatgatgatggcaaaagaagaaatataaatgctaatacaagtgattccaaaattttactatagGGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATATGGCCGCACTCAAGTATTGGGGACCCTCCTCCCATATAAATTTCCCT
Basic information
species | Glycine max |
transcript | GLYMA11G04910.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G37750.1 (Arabidopsis thaliana), 3'ss of exon 4
ttaacttgaagttaaagatatcat----ttaatattttgctcatgatgatggcaaaagaagaaatataaatgctaa------tacaagtgattccaaaattttactatagGGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATATGGCCGCACTCAAGTATTGGGGACCCTCCTCCCATATAAATTTCCCT
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gtaagtacacacttcaatcttcatggattcatgatttccccctcaaatttctcgggaaaataatgatggattttgacttctttatttttgtttgattaaatctttattagGAGGTTATGATATGGAGGAGAAAGCTGCTCGAGCATATGATCTTGCTGCACTCAAGTACTGGGGTCCCTCTACTCACACCAATTTCTCT
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 3
-ttaacttgaagttaaagatatcatttaatattttgctcatgatgatggcaaaagaagaaatataaatgctaatacaagtgat-tccaaaattttactatagGGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATATGGCCGCACTCAAGTATTGGGGACCCTCCTCCCATATAAATTTCCCT
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tttcagtttatcttggtaagccttcttatagagaggttcaacatt-taatcatacaccccattcaatttttcat-catctcatgtcctgaaactgattttagGGGGTTATGACATGGAAGAAAAAGCTGCAAGAGCTTATGATCTGGCAGCACTTAAGTATTGGGGACCTTCTACCCATATCAATTTCCCG
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ26861 (Selaginella moellendorffii), 3'ss of exon 3
ttaacttgaagttaaagatatcatttaatattttgctcatgatgatggcaaaagaagaaatataaatgctaatacaagtgatt--ccaaaattttac-tatagGGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATATGGCCGCACTCAAGTATTGGGGACCCTCCTCCCATATAAATTTCCCT
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--aatgcgcagtttacctgggtgagtgtcactct-ttgttgttcgtgcttgaagttttttttcgttcctcatttaatgtttcttgccgggaatgaatgcgcagGGGGTTATGACAAAGAAGAGAAAGCAGCGCGAGCGTATGATCTGGCGGCGCTCAAGTATTGGGGACCTACGACCACCATCAACTTTCCT
upper sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ21317 (Selaginella moellendorffii), 3'ss of exon 3
ttaacttgaagttaaagatatcatttaatattttgctcatgatgatggcaaaagaagaaatataaatgctaatacaag---tgattccaaaattttac-tatagGGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATATGGCCGCACTCAAGTATTGGGGACCCTCCTCCCATATAAATTTCCCT
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--aatgcgcagtttacctgggtgagtgtcactct-ttgttgttcgtgcttgaagt-gttttttcgttcctcatttaatgtttcttgccgggaatgaatgcgcagGGGGTTATGACAAGGAAGAGAAAGCAGCGCGAGCGTATGATCTGGCGGCGCTCAAGTATTGGGGACCTACGACCACCATCAACTTTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggcaaaagaagaaatataaatgctaatacaagtgattccaaaattttactatagGGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATATGGCCGCACTCAAGTATTGGGGACCCTCCTCCCATATAAATTTCCCT
tgctaat putative branch site (score: 2)
ttttact putative PPT
aaagaagaaatataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaacttgaagttaaagatatcatttaatattttgctcatgatgatggcaaaagaagaaatataaatgctaatacaagtgattccaaaattttactatagGGGGTTATGATATGGAAGAAAAAGCTGCAAGAGCTTATGATATGGCCGCACTCAAGTATTGGGGACCCTCCTCCCATATAAATTTCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - -ctcatga
- - - - - - - - - - - - - - - - - - - - - tgatggc
- - - - - - - - - - - - - - - - - - - - - - - - -aaaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgattcc