Sequence
atgc intronic sequence ATGC exonic sequence...aacaatcaattagatccttgaaattaaggaattgtgcagatttctaacattaacttggttcttttcctctgtgatctcctgattgaacctgattttgcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G335287_T01 (Zea mays), 3'ss of exon 13
--aacaatcaattagatccttgaaattaaggaattgtgcagattt--ctaacat---taacttggttcttt---tcctctgtgatctcctgattgaac---------ctgattttg---cagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG
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gtgactattcttttcccttatggaatcccagctgtatgcataatgtgcgaacagacacagtttggtcattcgagacatctggtacatttttgtttgatgttattggactgatttcgaatcagGATGTTGGAGAAAGTTTGCAAAGATCCCCAAATGCTTGCAGATGTGTTTGTGAACTATGACTGTGATCTTGAGGGACCAAATCTTTTTGAACGCACG
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA13G17610.1 (Glycine max), 3'ss of exon 15
-------------aacaatcaattagatccttga--aattaagga----attgtgcagatttctaacattaact--tggttcttttcctctgtgatctcctgattgaacctgattttgcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG
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gtataatgttcttcctggttgattaaaatattgcttgattataaactttgttaatgaaatttcttgtgttgtttgccattccttttccatattgttaatttggtttagtgtgggtttgcagGATGTTAGAGAAAGTATGTAAGGATCCACAGATGCTTGTTGACATCTTTGTGAATTATGATTGTGATCTTGAGGCACCAAACTTGTTTGAACGAATG
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 15
-------------------------aacaatcaattagatccttgaaattaaggaattgtgcagatttctaacattaacttggttcttttcctctgtgatctcctgattgaacctgattttgcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG
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gtataatgttcttcctggttgattaaaatattgcttgtgttataaactttttgttaatgaactttcttgtgttgtttgcc-atttcttttcctcattgttaatttggtttagtgtgggtttgcagGATGTTAGAGAAAGTATGTAAGGACCCACAGATGCTTGTTGACATCTTTGTGAATTATGATTGTGATCTTGAGGCACCAAACTTGTTTGAACGAATG
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 14
---aacaatcaattagatccttgaaattaag----gaattgtgcagatttctaac----attaacttggttcttttcctctgtga-tctcctgattgaacctgatttt----gcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG
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gtacaatatttttctgctcgtccagatgtaattttgttttgaatacatctcttaggcaagtgagtctattatctttttgctgtgaatttcatggatactcatatttttctacgcagGATGCTTGAGAAAGTCTGCAAAGATCCTCAGATGCTTGTTGATGTGTATGTAAACTATGATTGTGATCTAGAGGCCCCAAACTTGTTTGAGCGCATG
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: PP1S369_3V6.1 (Physcomitrella patens), 3'ss of exon 6
-aacaatcaattagatccttgaa-attaaggaattgtgcagatttctaacattaacttggttcttttcctctgtgatctcctgattgaacctgattttgcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG---
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gggttacaagcctgatgtttgattgacaaggcgaggtccaacgtgcatctatggtggcggtgcaagcggattgag-tgtggtg-tggtgtgtggcactgcagGATGCTGGAGAAGGCTTGCAACGATCCGCAGATGCTGGCAGACATTTTTGTGAACTACGATTGTGATCTGGACGCTACGAACTTGTTTGAACGCATGGTA
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: PP1S382_36V6.1 (Physcomitrella patens), 3'ss of exon 6
-aacaatcaattagatccttgaa-attaaggaattgtgcagatttctaacattaacttggttcttttcctctgtgatctcctgattgaacctgattttgcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG
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gggttacaagcctgatgtttgattgacaaggcgaggtccaacgtgcatctatggtggcggtgcaagcggattgag-tgtggtg-tggtgtgtggcactgcagGATGCTGGAGAAGGCTTGCAACGATCCGCAGATGCTGGCAGACATTTTTGTGAACTACGATTGTGATCTGGACGCTACGAACTTGTTTGAACGCATG
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: PP1S19_33V6.1 (Physcomitrella patens), 3'ss of exon 6
--aacaatcaattagatccttgaaattaaggaattgtgcagatttctaacattaacttggttcttttcctctgtgatctcctg-attgaacc---tgattttgcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG
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tatggcaccaacatgaggacggc--ttgagtgataggaca-atgttgagcatgccccca---cgtttggggtacaaactgatggagtgtaccctgtgacactgcagAATGGTGGGGAAGGCTTGCGATGATCCGCAGATGCTGACGGACATTTTTGTGAACTATGATTGCGATCTGGAGGCCACGAACTTATTTGAACGCATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacattaacttggttcttttcctctgtgatctcctgattgaacctgattttgcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG
ttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacaatcaattagatccttgaaattaaggaattgtgcagatttctaacattaacttggttcttttcctctgtgatctcctgattgaacctgattttgcagGATGCTTGAGAAAGTTTGTAAAGATCCCCAGATGCTTGTTGACATATATGTGAACTATGATTGTGATCTTGAGGCCCCAAACTTGTTTGAGCGCATG
- caatcaa
- - - - - - - - - - aaattaa
- - - - - - - - - - - - - - - - - tgcagat
- - - - - - - - - - - - - - - - - - - - - - - -cattaac