Sequence
atgc intronic sequence ATGC exonic sequencegtagtactgatcgagttcatagcatctaaattcaagagggacaattttattggtgaaagatatatattatttgttaacttcttcatttttttttcttttttgtttttaaattttaaagAGATTTGCAGAATAGGAACAGAAGAACAAAATGAATGGTACTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGCACGAATAGAGCGACTGC
Basic information
species | Glycine max |
transcript | GLYMA12G00760.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G00760.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G178998_T01 (Zea mays), 3'ss of exon 3
-----------------------------------------------------gtagtact-gatcgagttcatagcatctaaattca-----agagggacaattttattggtgaaagat-atatattatttgttaac--ttcttcatttttttttcttttttgtttttaaattttaa------agAGATTTGCAGAATAGGAACAGAAGAACAAAATGAATGGTACTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGCACGAATAGAGCGACTGC
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gtacatcaacctaaactcgatttgtactccgagcttgcatgatgagacataaaactgtacttagctgagatatgtacacctcaaagcatgtgtggaacaacaagcttcttgtggagtcattatgcatgaagc-tcaacggttataagccgctaactcacttctacatatgcatggtgacgaaacagAAAAGTGCAGGATTGGAAGCGAAGAGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCAACCGGCACTCGCACCAACAGAGCGACGAC
upper sequence: GLYMA12G00760.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0022g00690.t01 (Vitis vinifera), 3'ss of exon 1
gtagtactgatcgagttcatagcatctaaattcaagagggacaattttattggtgaaa--gatatatattatttgttaacttcttcatttttttttcttttttg--tttttaaattttaa-agAGATTTGCAGAATAGGAACAGAAGAACAAAATGAATGGTACTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGCACGAATAGAGCGACTGC
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---gtattccatgattttacaatcattcccatcaatagaatgaactctatccttagaattaaactacccaaattaacaaatgtattgttaaccgaactaagttgactttgtaaatttgaacagAACTTTGCAGAATAGGAACGGATGAGCAAAATGAATGGTACTTTTTTAGCCATAAAGATAAGAAGTATCCGACTGGGACTCGAACAAATAGGGCTACAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattatttgttaacttcttcatttttttttcttttttgtttttaaattttaaagAGATTTGCAGAATAGGAACAGAAGAACAAAATGAATGGTACTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGCACGAATAGAGCGACTGC
tgttaac putative branch site (score: 2)
cttcttcatttttttt CT-rich tract
ttcttcattttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtactgatcgagttcatagcatctaaattcaagagggacaattttattggtgaaagatatatattatttgttaacttcttcatttttttttcttttttgtttttaaattttaaagAGATTTGCAGAATAGGAACAGAAGAACAAAATGAATGGTACTTCTTTAGCCATAAAGATAAGAAGTATCCAACTGGAACTCGCACGAATAGAGCGACTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT