Sequence
atgc intronic sequence ATGC exonic sequence...ctcacgaagaatgttaataatgccatgaacatcattttttcattagtacatgtctaaattatggattgaaatttgttactaatttattcatttctgtcagGATGGTGATCCACGCTTATCTAGTTTTGGGCTTATGAAAAATAGTCGAGATGGGAAAAGCTACAGTACTAATTTAGCTTATACTCCACCTGAATTTTTGC
Basic information
| species | Glycine max |
| transcript | GLYMA05G06140.1 |
| intron # | 4 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G06140.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 4
------ctcacgaagaatgttaataatgccatgaacatcattttttcattagtacatgtctaaattatggattgaaatttgttactaatttattcatttctgtcagGATGGTGATCCACGCTTATCTAGTTTTGGGCTTATGAAAAATAGTCGAGATGGGAAAAGCTACAGTACTAATTTAGCTTATACTCCACCTGAATTTTTGC
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aatgtagatatgcatttagatcttattctcatgcacatcttgtggccaccaaattctctctatcct------catactttataactaaattttgcacttgtgtcagGATGGTGACCCTCGTTTATCAAGTTTTGGCCTTATGAAAAATAGTCGAGATGGTAAAAGCTACAGTACAAACTTGGCTTATACTCCACCAGAGTTTTTGC
upper sequence: GLYMA05G06140.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S156_133V6.1 (Physcomitrella patens), 3'ss of exon 4
-ctcacgaagaatgttaataat--gccatgaacatcattttttcattagtacatgtctaaattatggattgaaatttgttactaatttattcatttctgtcagGATGGTGATCCACGCTTATCTAGTTTTGGGCTTATGAAAAATAGTCGAGATGGGAAAAGCTACAGTACTAATTTAGCTTATACTCCACCTGAATTTTTGC
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ttttgtggtttttcctttgaactagctctgcttggtatgtggatgttaactaaagtctagaaaacggtt---agtttatttatggttatctgcaatttatcagGATGGAGACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGGAAAAGCTACAGCACCAATCTGGCTTACACTCCTCCTGAGTACTTAA
upper sequence: GLYMA05G06140.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S9_348V6.1 (Physcomitrella patens), 3'ss of exon 4
ctcacgaagaatgttaataatgccatgaacatcattttttcattagta-catgtctaaattatggattga--aatttgttactaatttatt-catttctgtcagGATGGTGATCCACGCTTATCTAGTTTTGGGCTTATGAAAAATAGTCGAGATGGGAAAAGCTACAGTACTAATTTAGCTTATACTCCACCTGAATTTTTGC
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-tcgtgtgggtttcctttg--gaaatagttctacttagtacgtggatttcaactgcagttaatagaatgctcagtatattaacgattctctacgattttgt-agGACGGAGACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGAAAAAGCTACAGCACCAATTTGGCTTACACTCCTCCTGAGTACTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtacatgtctaaattatggattgaaatttgttactaatttattcatttctgtcagGATGGTGATCCACGCTTATCTAGTTTTGGGCTTATGAAAAATAGTCGAGATGGGAAAAGCTACAGTACTAATTTAGCTTATACTCCACCTGAATTTTTGC
tactaat putative branch site (score: 1)
ttcatttct putative PPT
taaattatggattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcacgaagaatgttaataatgccatgaacatcattttttcattagtacatgtctaaattatggattgaaatttgttactaatttattcatttctgtcagGATGGTGATCCACGCTTATCTAGTTTTGGGCTTATGAAAAATAGTCGAGATGGGAAAAGCTACAGTACTAATTTAGCTTATACTCCACCTGAATTTTTGC
- - - - - - - - - - - -catgaac
- - - - - - - - - - - - - - - - - - - - - - - -acatgtc
