Sequence
atgc intronic sequence ATGC exonic sequence...ttatcctatcaaaaagaaaaacttagcacttttttgaccttgttatcttctattaatgttgtatggtgaccatctagttatgttcttaaatcttttacagGATGTGGAAGGGATGATGTCAATTTCTGTTGAAGCATCTGAGGCTCGGGATTCTTTGAGTGATGATAAAGAACTCATCAACACGTACGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g51430.1 (Oryza sativa), 3'ss of exon 4
-----------ttatcctatcaaaaagaaa------aacttagcacttttttgacctt-gttatc--ttctattaatgttgtatggtgacca-----tctagt-----------------tatgt---tcttaaatcttttacagGATGTGGAAGGGATGATGTCAATTTCTGTTGAAGCATCTGAGGCTCGGGATTCTTTGAGTGATGATAAAGAACTCATCAACACGTACGAG
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gtgtgctgaccttactttagcaataacaactgtattaaggttgtacttgcttgttttttactaacgttcttatcaatacattaagctaaccaagttatcgagcacgaaaatttcatctgacatgttgattgtcaatgcctattagGATGTGGGAGGTATGATGTCTATTTCTGTTGAAGCAGCTGCAGCACGCGACTCGCTAAGTGATGATAAAGAGTTAATTCGCACTTATGAG
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 5
ttatcctatcaaaaagaaaaacttagcacttttttgacc--ttgttatcttctattaatgttgtatggtgaccatctagttatgttcttaaatctttt-acagGATGTGGAAGGGATGATGTCAATTTCTGTTGAAGCATCTGAGGCTCGGGATTCTTTGAGTGATGATAAAGAACTCATCAACACGTACGAG
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---tcatattgaataaacatgattggaacctagttgttcacttgtattggtatgtgcaaatcctgtctttatggttttgtctgatttcttggtcttcggatagGATGTAGAAGGTATGATGTCTATCTCTGATGAGGCAGCAGAGGCTCGGGATTCTTTGAGCGATGACAAAGAAATTGTCAACACTTACGAG
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G71820.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------------------------------------ttatcctatcaaaaagaaaaacttagcacttttttgaccttgttatcttctattaatgttgtatg-----gtgaccatctagttatgttcttaaatcttttacagGATGTGGAAGGGATGATGTCAATTTCTGTTGAAGCATCTGAGGCTCGGGATTCTTTGAGTGATGATAAAGAACTCATCAACACGTACGAG
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gtagatatgccgatgagcactgattgtattgcttacagtatttggttcagtgttgtccttctaacttattcttgaacgcaaatatatatagctctgcatggtcgtctcagatgtttaaatgctttccaagtttttgtcaacttatttttacctcattctcttttttcaagGATGTAGAAGGTATGATGTCAATTTCTGTTGAAGCTGCTGCGGCTAGGGATTCTTTGAGTGATGATAAAGAAATCGTTAACACTTATGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttctattaatgttgtatggtgaccatctagttatgttcttaaatcttttacagGATGTGGAAGGGATGATGTCAATTTCTGTTGAAGCATCTGAGGCTCGGGATTCTTTGAGTGATGATAAAGAACTCATCAACACGTACGAG
tattaat putative branch site (score: 2)
tcttttac putative PPT
ttcttaaatctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatcctatcaaaaagaaaaacttagcacttttttgaccttgttatcttctattaatgttgtatggtgaccatctagttatgttcttaaatcttttacagGATGTGGAAGGGATGATGTCAATTTCTGTTGAAGCATCTGAGGCTCGGGATTCTTTGAGTGATGATAAAGAACTCATCAACACGTACGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - cctatca
- - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - -gaccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatcta