Sequence
atgc intronic sequence ATGC exonic sequencegtatgtcaccttcttttctctccccatgaatgtctttaattttaagaaaaagttttcagaattttatcatttctccttttggaagatcaacaaagaatgtaactaagaaagcctttttgggttatagtaatccatagttgttactaattctatgcagGTTTCAAAGGTGAATTTGATAATTACAGACTACTGTATGCCAGGAATGACAGGCTATGAGCTGCTCAAGAGAGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G40100.1 (Glycine max), 3'ss of exon 2
gtatgtcaccttcttttctctccccatgaatgtctttaattttaagaaaaagttttcagaattttatcatttctccttttggaagatcaacaaagaatgtaactaagaaagcctttttgggttatagtaatccatagttgttactaattctatgcagGTTTCAAAGGTGAATTTGATAATTACAGACTACTGTATGCCAGGAATGACAGGCTATGAGCTGCTCAAGAGAGTCAAG
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-----------------------------------------------------tttaatgaatttaaaagtgataaatcagagtgttctactacatacatt-ttaacctagctgatacgtgcta-actaattatagactatt--tgctactttgtagAGATCCAAAGTAAATATGATAATCACAGACTATTGCATGCCAGGGATGACAGGCTACGAGCTACTTAAGAAAATTAAG
upper sequence: Vv13s0067g03070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G56380.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgtcaccttcttttctctccccatgaatgtctttaattttaagaaaaagttttcagaattttatcatttctccttttggaagatcaacaaagaatgtaactaagaaagcctttttgggttatagtaatccatagttgttactaattctatgcagGTTTCAAAGGTGAATTTGATAATTACAGACTACTGTATGCCAGGAATGACAGGCTATGAGCTGCTCAAGAGAGTCAAG
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------------------------------------------------------------gtaagctcaatcttccccatgaaacattctgattggtttggagaggagacatttgtataacatccaatatgacctt-ttgagactgtttttt--cagGTAATGAAGGTGAATCTCATCATCACTGATTATTGTATGCCAGGAATGACAGGTTTTGAGCTGCTTAAGAAAGTGAAG
upper sequence: Vv13s0067g03070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ14702 (Selaginella moellendorffii), 3'ss of exon 2
----------------------------gtatgtcaccttcttt--tctctccccatgaatgtctttaattttaagaaaaagttttcagaatttt---atcatttc--tccttttggaagat--caacaaagaatgtaactaagaaagcctttttgggttatagtaatccatagttgttactaattctat-gcagGTTTCAAAGGTGAATTTGATAATTACAGACTACTGTATGCCAGGAATGACAGGCTATGAGCTGCTCAAGAGAGTCAAG
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gttcgtgctcttcttctttcttgtgctggattgaaaactcgttaaatcgttgtcgcttgatctgtatggaatgaaaaaaaaggtgatagctttgttgggtggttgtggtggtgttggtggatgctagctaagctaatctttggctgatttcctcgagattttctttgcttcctctggcttttgcttttgttgcagGCCATTAAAATAAACTTGATCATCACGGACTATTGTATGCCGGAAATGACAGGCTATGATCTGCTCAAGAAGGTCAAG
upper sequence: Vv13s0067g03070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ14701 (Selaginella moellendorffii), 3'ss of exon 2
gtatgtcaccttcttttctctccccatgaatgtctttaattttaagaaaaagttttcagaattttatcatttctccttttggaagatcaacaaagaatgtaactaagaaagcctttttgggttatagtaatccatagttgttactaattctat-gcagGTTTCAAAGGTGAATTTGATAATTACAGACTACTGTATGCCAGGAATGACAGGCTATGAGCTGCTCAAGAGAGTCAAG
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---------------------------------------------------------tgggtggttgtggtggtgttggtggatgct-agctaagctaatctttggctgatttcctcgagattttctttgcttcctctggcttttgcttttgttgcagGCCATTAAAATAAACTTGATCATCACGGACTATTGTATGCCGGAAATGACAGGCTATGATCTGCTCAAGAAGGTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaagaaagcctttttgggttatagtaatccatagttgttactaattctatgcagGTTTCAAAGGTGAATTTGATAATTACAGACTACTGTATGCCAGGAATGACAGGCTATGAGCTGCTCAAGAGAGTCAAG
tactaat putative branch site (score: 1)
ttatagtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtcaccttcttttctctccccatgaatgtctttaattttaagaaaaagttttcagaattttatcatttctccttttggaagatcaacaaagaatgtaactaagaaagcctttttgggttatagtaatccatagttgttactaattctatgcagGTTTCAAAGGTGAATTTGATAATTACAGACTACTGTATGCCAGGAATGACAGGCTATGAGCTGCTCAAGAGAGTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA