Sequence
atgc intronic sequence ATGC exonic sequence...tgtgaattactttgtaccttttttcgattttattatggaacaggaaaatcttctggatcatttctttcctgcaatgtcattgttcatgttgattttgcagCTTCTTGGTAACAGTTATGGGCTTGGTAATTCCATGGAGTTTGACACTGTCACTGGTGGATGCATACTCTGTCTTTGTTAAATGTCCTCTGCATCAACCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0207g00200.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G25850.1 (Glycine max), 3'ss of exon 1
-tgtgaattactttgtaccttttttcgattttattatggaacaggaaaatcttctggatcatttctttcctgcaatgtcattgttcatgttgattttgcagCTTCTTGGTAACAGTTATGGGCTTGGTAATTCCATGGAGTTTGACACTGTCACTGGTGGATGCATACTCTGTCTTTGTTAAATGTCCTCTGCATCAACCA
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gcattggcaatgtcttggggtttatcctgtctagcctggcttctacgcatatgcttcacttgaggttttcacctttgtctttgtttatgct-attccacagCTACTTGGTAACTGTCATGGGTTTGGTAATTCCCTGGAGCATAACACTGTTGGTTGTAGATGCATACTCTGTCTTTATAAAATGTTTACCCCTCCAACGA
upper sequence: Vv00s0207g00200.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G38740.2 (Glycine max), 3'ss of exon 1
----tgtgaattactttgtaccttttttcgattttattatgga-acaggaaaatcttctggatcatttctttcctgcaatgtcattgttcatgttgattttgcagCTTCTTGGTAACAGTTATGGGCTTGGTAATTCCATGGAGTTTGACACTGTCACTGGTGGATGCATACTCTGTCTTTGTTAAATGTCCTCTGCATCAACCA
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ttggcgtgtcttgctgtttatattctatcaaggttatcgtatatgcatgtgcctcacctggggattcttaatttt----tgtcattatacatgct-attccacagCTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAACATAACATTGTTGGTGGTGGATGCTTACTCTGTCTTCATACAGTATTTACCGATTCAACGA
upper sequence: Vv00s0207g00200.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G06520.1 (Glycine max), 3'ss of exon 1
--tgtgaattactttgtaccttttttcgattttattatgga-acaggaaaatcttctggatcatttctttcctgcaatgtcattgt-tcatgttgattttgcagCTTCTTGGTAACAGTTATGGGCTTGGTAATTCCATGGAGTTTGACACTGTCACTGGTGGATGCATACTCTGTCTTTGTTAAATGTCCTCTGCATCAACCA
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ttggcgtgtcttgcagtttattctatcaagtttatcgtatatgcatgtgcctcacctgggg-attcttaactttt--tgtcttcatatcatgct-attccacagCTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAGCATAACATTGTTGGTGGTAGATGCTTACTCTGTCTTCATACAGTATTTACCGGTTCAACGA
upper sequence: Vv00s0207g00200.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G06820.2 (Glycine max), 3'ss of exon 1
---tgtgaattactttgtaccttttttcgattttattatggaacaggaaaatcttctggatcatttctttcctgcaatgtcattgttcatgttgattttgcagCTTCTTGGTAACAGTTATGGGCTTGGTAATTCCATGGAGTTTGACACTGTCACTGGTGGATGCATACTCTGTCTTTGTTAAATGTCCTCTGCATCAACCA
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tcattggcaatgtcttggggtttatcctgtctagcctgtcttctatgcatatgcttcacttgaggttttcacctt--tgtctttgattatgct-attccacagCTATTTGGTAACCGTCATGGGTTTGGTAATTCCCTGGAGCATAACACTGTTGGTTGTAGATGCATACTCTGTCTTTATAAAATGTTTACCCCTCCAACGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatcttctggatcatttctttcctgcaatgtcattgttcatgttgattttgcagCTTCTTGGTAACAGTTATGGGCTTGGTAATTCCATGGAGTTTGACACTGTCACTGGTGGATGCATACTCTGTCTTTGTTAAATGTCCTCTGCATCAACCA
tgttgat putative branch site (score: 4)
atttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgaattactttgtaccttttttcgattttattatggaacaggaaaatcttctggatcatttctttcctgcaatgtcattgttcatgttgattttgcagCTTCTTGGTAACAGTTATGGGCTTGGTAATTCCATGGAGTTTGACACTGTCACTGGTGGATGCATACTCTGTCTTTGTTAAATGTCCTCTGCATCAACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - ggaaaat
- - - - - - - - - - - - - - - - - - - - - - - - -cttctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttcatg