Sequence
atgc intronic sequence ATGC exonic sequence...tttataatttgataactagtcttaatttgaacagtcctgaaccagttctctaatttgacaaacacacccttaatatctaacttcacttcctctcatcaagGTTGATAGATGCGCTGGACATGATGAAACAAGGTGTGAAGCGTCTGCTTGTTCCAAAGAGCATAGCATGGAAGGGCATGAGCAAGCGATTCTCAGTTATC
Basic information
species | Glycine max |
transcript | GLYMA18G47620.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47620.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G65320.1 (Arabidopsis thaliana), 3'ss of exon 1
tttataatttgataactagtcttaatttgaacagtcctgaaccagttctctaatttgacaaacacacccttaatatc----taacttcacttcctctcat------caagGTTGATAGATGCGCTGGACATGATGAAACAAGGTGTGAAGCGTCTGCTTGTTCCAAAGAGCATAGCATGGAAGGGCATGAGCAAGCGATTCTCAGTTATC
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---------ttgcagtgaat-ttgatgtgtctgttgatggaataaccttccttgtttaaataccagtttttattatgatgatgattttcttttatcaaatataatgcaagGTTGATAGATGCTTTGGAGATGATGAAACAAGGAGTGAGACGACTTCTGGTTCCAAAAAGCGTTGTTTGGAGAGGTATGAGCAAGAGGTTCTCCATTCTT
upper sequence: GLYMA18G47620.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0023g00310.t01 (Vitis vinifera), 3'ss of exon 2
tttataatttgataactagtcttaatttgaacagtcctgaaccagttctctaatttgacaaac-acacccttaatatctaacttcacttcctctcat-caagGTTGATAGATGCGCTGGACATGATGAAACAAGGTGTGAAGCGTCTGCTTGTTCCAAAGAGCATAGCATGGAAGGGCATGAGCAAGCGATTCTCAGTTATC
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tagaaaaatagaatatagaattttatctgcaattttttttagagatgctctg--tggatgctccatactgacgtcatcccgacctgtttgtttttgtgcaagATTGATAGACGCCCTGGAGATGATGAAGCATGGTTTGAAGCGTCTTCTTGTTCCCAAGAGCGTGGTATGGAAAGGCATGAGCAAGCGATTCTCAATTCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctctaatttgacaaacacacccttaatatctaacttcacttcctctcatcaagGTTGATAGATGCGCTGGACATGATGAAACAAGGTGTGAAGCGTCTGCTTGTTCCAAAGAGCATAGCATGGAAGGGCATGAGCAAGCGATTCTCAGTTATC
atctaac putative branch site (score: 2)
cttcacttcctctcat CT-rich tract
ttaatatctaactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttataatttgataactagtcttaatttgaacagtcctgaaccagttctctaatttgacaaacacacccttaatatctaacttcacttcctctcatcaagGTTGATAGATGCGCTGGACATGATGAAACAAGGTGTGAAGCGTCTGCTTGTTCCAAAGAGCATAGCATGGAAGGGCATGAGCAAGCGATTCTCAGTTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - ctgaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caccctt