Sequence
atgc intronic sequence ATGC exonic sequence...tgatttatagcaaatttgtgatatttatgaagaagaagaaatattctttaattacttgtatttttatttttgttaatgaattttctgttaacctttgcagGAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGACCGGAGGTTTTACCTGCAGAGGCATAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCGG
Basic information
species | Glycine max |
transcript | GLYMA11G19910.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G19910.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G28110.1 (Arabidopsis thaliana), 3'ss of exon 3
tgatttatagcaaatttgtgatatttatgaagaagaagaaatattctttaattacttgtatttttatttttgttaatgaatt--ttctgttaacctttgcagGAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGACCGGAGGTTTTACCTGCAGAGGCATAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCGG
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---gtaacaaaactcttatagcaatctctatacctagttttttttcttctataaaatgcataaa-actttaaatattgaactactttttttaacctatcagGCGTGTAAGGACGAATATATGGCGGAGTTACGGTGGTGACCGGAGGTTTTATCTCCAACGGCAAAGATTTGCCGGTTACCAGTCAGAAATAGCTCGTTCT-
upper sequence: GLYMA11G19910.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0061g00560.t01 (Vitis vinifera), 3'ss of exon 3
-----tgatttatagcaaatttgtgatatttatgaagaagaagaaatattctttaattacttgt-atttttatttttgttaatgaat--tttctgttaacctttgcagGAA-GTGCGGACGGTGATATGGAGGAAGTTCAACGGTGACCGGAGGTTTTACCTGCAGAGGCATAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCGG
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gtaatctaatcataaccctctaatcaaactactaatcatgccacctcattaccaatttacccctcatattcataattgtaagtttttaacccttgttctccctttcagGGCTGTGAGAACGGCGATATGGCAAAAGTACGGCGGGAACCGGAAATTTTACCTGAAAAGGCACCGGTTTGCCGGTTACCAGTCAGAAATCGTACGGTCT- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttaattacttgtatttttatttttgttaatgaattttctgttaacctttgcagGAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGACCGGAGGTTTTACCTGCAGAGGCATAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCGG
tgttaac putative branch site (score: 2)
cctttgc CT-rich tract
attacttgtattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatttatagcaaatttgtgatatttatgaagaagaagaaatattctttaattacttgtatttttatttttgttaatgaattttctgttaacctttgcagGAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGACCGGAGGTTTTACCTGCAGAGGCATAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - -tatgaag
- - - - - - - - - - - - - - - - - -aagaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgtt