Sequence
atgc intronic sequence ATGC exonic sequence...ataaaagaatgcaagtttcctgtattggaaaagcgttaaatacaagataagataatggatttaggtcacattaaccacaaacaatacaatattgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTATTGTGACTGCTATGCTGACTGCTCCGGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10970.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G04130.1 (Glycine max), 3'ss of exon 1
ataaaagaatgcaagtttcctgtattggaa-aagcgttaaatacaa-gataagataatggatttaggtcacattaaccacaaacaataca-atattgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTATTGTGACTGCTATGCTGACTGCTCCGGATG
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--acaagaatcaaggatatataaaccacattatatatcttatatgttaattatataacttaatgtagtc-tgttaacaattaacgatttatatatacatgcagGAGTTGGACGGTGAGGATGCAAGGCTTGCAGACTATTTTGATGTGATTGCTGGAACAAGCACAGGTGGTATTGTAACAGCTATGCTAAGTGCTCCAAATG
upper sequence: Vv18s0001g10970.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G03970.1 (Glycine max), 3'ss of exon 1
ataaaagaatgcaagtttcctgtattggaaaagcgttaaat-acaagataag-ataatggatttaggtcacattaaccacaaacaatacaatattgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTATTGTGACTGCTATGCTGACTGCTCCGGATG
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aaagaaaacgtcaagaatcatggat--aaagcacattatcttataagttaattataacttaatgtggtctgttaattaataattaacgatctatacatgcagGAGTTGGACGGTGAGGATGCAAGGCTTGCAGACTATTTTGATGTGATTGCAGGAACAAGCACAGGAGGTATTGTAACAGCTATGTTAACTGCTCCAAATG
upper sequence: Vv18s0001g10970.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G36250.1 (Glycine max), 3'ss of exon 1
ataaaagaatgcaagtttcctgtattggaaaagcgttaaatacaagataagataatggatttaggtcacattaacca--caaacaatacaatattgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTATTGTGACTGCTATGCTGACTGCTCCGGATG-
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atatgtcaacatgtggaacc-ataatactaatcctatacatagtat-tgaaagaataattacattatatattgatccattcgggggcatgatat-gatgcaggAATTGGATGGTCCAGATGCAAGGCTTGCAGACTATTTTGACGTGATATCAGGAACAAGCACAGGAGGTCTTGTAACCGCTATGATAACTGCTCCAGACAA
upper sequence: Vv18s0001g10970.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G08910.1 (Glycine max), 3'ss of exon 1
---------------------------------------------------------------------------------------ataaaagaatgcaagtttcctgtattg--gaaaagcgttaaatacaagataagataatggatttaggtcacattaac---------cacaaacaatacaatattg-aat-cagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTATTGTGACTGCTATGCTGACTGCTCCGGATG
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gtatattgatcatctagctatacaaatattgttgtttatcttctaattaatccatcactgatgagctatatatatattttttccttaacaaaaccatgacataatagtatattactaataataattcataaccaaccaaaatgaaatgtttaattcataacgacatatatattcatcggggccatgatgatgcaatgcagGAGTTGGACGGTCCAGAAGCGAGGCTTGCAGACTATTTTGATGTGATATCAGGAACAAGCACAGGAGGTCTTGTAACTGCTATGATAACTGCTCCAGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gataagataatggatttaggtcacattaaccacaaacaatacaatattgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTATTGTGACTGCTATGCTGACTGCTCCGGATG
cattaac putative branch site (score: 2)
aaacaatacaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataaaagaatgcaagtttcctgtattggaaaagcgttaaatacaagataagataatggatttaggtcacattaaccacaaacaatacaatattgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTATTGTGACTGCTATGCTGACTGCTCCGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG