Sequence
atgc intronic sequence ATGC exonic sequence...ggaaccaaatatcaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G03580.1 (Glycine max), 3'ss of exon 14
ggaaccaaatatcaccttttggttctaaatattgggattcttttt-ttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
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--------gtactttcgtgtccctcattaaatcttcattattttgatagtcttgatagttgacacttgtaatatttttgttgattaatgttc-------agGGTGGATATGCTGCAAATTTAGCTCCTGCAAAATTAGTTGGCAAATTGCTCAACTTTTTTGATAGCACTGCACATCGAGTTGTTGGTGGTTTACCACCGC
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G41790.1 (Glycine max), 3'ss of exon 13
ggaaccaaatatcaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
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-----------gtacttccttgtccct--tattaaa---tcttcattattttggtagtcttgatacttatcatgtttttattta----tttaatgttcagGGTGGATATGCTGCAAATTTAGCTCCTGCAAAATTAGTTGGCAAATTGCTCAACTTTTTTGATAGCACTGCACATCGAGTTGTTGGTGGTTTACCACCGC
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G03590.1 (Glycine max), 3'ss of exon 14
ggaaccaaatatcaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
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------gtacttccttgtcccttactaaatcttcat-tattttgatagtcttgatagttgacacttgtaatatttttattgattaacgttc-------agGGTGGATATGCTGCAAATTTAGCTCCTGCAAAATTAGTTGGCAAATTGCTCAACTTTTTTGATAGTACTGCACATCGAGTTGTTGGTGGTTTACCACCAC
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 11
ggaaccaaatatcaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
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--------gtacttccttgtcccttagtaaatcttcattattttgatagtcttg----atagttgatatttataatcatt--ttgttgattaatgttcagGGTGGATATGCTGCAAATTTAGCTCCTGCAAAATTAGTTGGCAAATTGCTCAACTTTTTTGATAGCACTGCACATCGAGTTGTTGGTAGTTTACCACCGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
aactgat putative branch site (score: 3)
ttccattttt putative PPT
taaataaacattccat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggaaccaaatatcaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
-gaaccaa
- - - - - - - ccttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa