Sequence
atgc intronic sequence ATGC exonic sequence...tttgaaggttcattctctagtttttacaaaaacagttttttatggttttacttattggttattttatagagtaaataggctaatgctaaacctttcatagTTGACTGGGGGGAGAATTGGTGACCGATTGATGGCTGAAGCTGAAACCAACCTTGCCATAAATGTGCTTCCAGGCTTATCAGAATCATTTGAAGTTCAGG
Basic information
species | Glycine max |
transcript | GLYMA06G43820.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G43820.2 (Glycine max), 3'ss of exon 8
lower sequence: AT2G31060.3 (Arabidopsis thaliana), 3'ss of exon 8
tttgaaggttcattctctag---tttttacaaaaaca-gttttttatggttttac-ttattggttattttatagagtaaataggctaatgctaaacctttcatagTTGACTGGGGGGAGAATTGGTGACCGATTGATGGCTGAAGCTGAAACCAACCTTGCCATAAATGTGCTTCCAGGCTTATCAGAATCATTTGAAGTTCAGG
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----aatgtgtcccccttagcgatatttgaagaaatatgttgtgttaggtggtagaccactcgttctggcacat-gttgataggcctttgctaatctgcatgcagTTAACTGGAGGAAGAATCGGGGACCGGTTAATGGCAGAAGCTGAAACAAATCTTGCCATAAACGTTATTCCAGGCTTGTCAGAGTCATATGAAGTCCAAG
upper sequence: GLYMA06G43820.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv12s0028g02640.t01 (Vitis vinifera), 3'ss of exon 8
tttgaaggttcattctctagtttttacaaaaacagttttttatggttttacttatt---ggttattttatagagtaaataggctaatgctaaacctttcatagTTGACTGGGGGGAGAATTGGTGACCGATTGATGGCTGAAGCTGAAACCAACCTTGCCATAAATGTGCTTCCAGGCTTATCAGAATCATTTGAAGTTCAGG
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---gataggttttcttctatgcttgatactgtgtcttcttctttgcccaagaaatcctggactgctttactagcagtaaagtcctaattttgatttattatagTTAACTGGTGGAAAAATTGGTGACCGATTAATGGCGGAAGCAGAAACAAATCTAGCCATAAATGTGCTCCCAGGATTATCAGAATCATATGAAGTTCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttacttattggttattttatagagtaaataggctaatgctaaacctttcatagTTGACTGGGGGGAGAATTGGTGACCGATTGATGGCTGAAGCTGAAACCAACCTTGCCATAAATGTGCTTCCAGGCTTATCAGAATCATTTGAAGTTCAGG
tgctaaa putative branch site (score: 2)
cctttcat CT-rich tract
ttattttatagagtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgaaggttcattctctagtttttacaaaaacagttttttatggttttacttattggttattttatagagtaaataggctaatgctaaacctttcatagTTGACTGGGGGGAGAATTGGTGACCGATTGATGGCTGAAGCTGAAACCAACCTTGCCATAAATGTGCTTCCAGGCTTATCAGAATCATTTGAAGTTCAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG