Sequence
atgc intronic sequence ATGC exonic sequencegtatgctttttgcataagctacagagaccttcacttaaatgttctgcatttctttgtcttttaaatggacaaatgcttaggaatactttttgtctaacaaacaatttttttgataagtcttttgtctaacaaacaattaaaaagaacaaaacataatatgtacctttgttgcagGCATGGGCCAGACTTTGCAAGTGCCTTGGCCAGGATTTCCTTCCTTACATGAATGTTGTCATGCCCCCCTTGCTTCAATCTGCTCAGCTTAAGCCTGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g49420.2 (Oryza sativa), 3'ss of exon 5
gtatgctttttgcataagctacagagaccttcacttaaatgttctgcatttctttgtcttttaaatggacaaatgcttaggaatactttttgtctaacaaacaatttttttgataagtcttttgtctaacaaacaattaaaaagaacaaaacataatatgtacctttgttgcagGCATGGGCCAGACTTTGCAAGTGCCTTGGCCAGGATTTCCTTCCTTACATGAATGTTGTCATGCCCCCCTTGCTTCAATCTGCTCAGCTTAAGCCTGATG
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----------------------------------------------------------------------------------gtatgttgtagctta-----aatactattgcca----ttttatgccatcactagtttgcttcagttttgcttattctaattgcattttctagGCATGGGCGAGATTGTGTAAATGCCTTGGTCAGGACTTCTTACCATACATGAATGTTGTTATGCCTCCTCTGCTCCAGTCTGCTCAGCTTAAACCAGATG
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM5G887631_T01 (Zea mays), 3'ss of exon 6
gtatgctttttgcataagctacagagaccttcacttaaatgttctgcatttctttgtcttttaaatggacaaatgcttaggaatactttttgtctaacaaacaatttttttgataagtcttttgtctaacaaacaattaaaaagaacaaaacataatatgtacctttgttgcagGCATGGGCCAGACTTTGCAAGTGCCTTGGCCAGGATTTCCTTCCTTACATGAATGTTGTCATGCCCCCCTTGCTTCAATCTGCTCAGCTTAAGCCTGATG
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--------------------------------------------------------------------------------------------------gtatgcttcaaagcaatgaaatctagtcttaaaaacaccttaatcattctaacacttatctccacat--gttatagGCTTGGGCTAGGCTATGCAAATGTCTTGGACAGGATTTCCTTCCTTACATGAGTGTTGTTATGCCTCCACTGCTTCAGTCTGCTCAACTCAAGCCTGATG
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 5
gtatgctttttgcataagctacagagaccttcacttaaatgttctgcatttctttgtcttttaaatggacaaatgcttaggaatactttttgtctaacaaacaatttttttgataagtcttttgtctaac-aaacaattaaaaagaacaaaacataatatgtacctttgttgcagGCATGGGCCAGACTTTGCAAGTGCCTTGGCCAGGATTTCCTTCCTTACATGAATGTTGTCATGCCCCCCTTGCTTCAATCTGCTCAGCTTAAGCCTGATG
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----------------------------------------------------------------------------------gtatgttagaacttgaaacc--ttgttctcaacttttttttgtcaatttaaatctttttttctcatttgatcta-tatgttcgcct-ctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATGAGTGTTGTTATGCCCCCTCTGCTCCAGTCTGCTCAGCTCAAACCAGATG
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G04400.2 (Glycine max), 3'ss of exon 6
gtatgctttttgcataagctacagagaccttcacttaaatgttctgcatttctttgtcttttaaatggacaaatgcttaggaatactttttgtctaacaaacaatttttttgataagtcttttgtctaacaaacaattaaaaagaacaaaacataatatgtacctttgttgcagGCATGGGCCAGACTTTGCAAGTGCCTTGGCCAGGATTTCCTTCCTTACATGAATGTTGTCATGCCCCCCTTGCTTCAATCTGCTCAGCTTAAGCCTGATG
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--------------------------------gtatagtctttctaccagcttttggcatcaacttggaaatatatttat-----tttgtcgtctagtaaa-aattctt---acaaatctcaaatttg-----cacttgga-------------------tgccatgctttcagGCATGGGCGCGGCTTTGCAAGTGCCTTGGGCAGGATTTTCTCCCATACATGGGTTTTGTCATGCCTCCTTTGCTCCAGTCTGCGCAACTTAAGCCCGATG
upper sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G29010.1 (Glycine max), 3'ss of exon 6
gtatgctttttgcataagctacagagaccttcacttaaatgttctgcatttctttgtcttttaaatggacaaatgcttaggaatactttttgtctaac--aaacaatttttttgataagtcttttgtctaacaaacaattaaaaagaacaaaacataatatg--tacctttgttgcagGCATGGGCCAGACTTTGCAAGTGCCTTGGCCAGGATTTCCTTCCTTACATGAATGTTGTCATGCCCCCCTTGCTTCAATCTGCTCAGCTTAAGCCTGATG
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--------------------------------------------------------------gtatggtc---tttttacaagctttttgcatcaacttggaaatatatatttattttgtcgtttagttaa--aattcttacgaatctcaaattttcacttggatgccatgctttcagGCATGGGCACGGCTTTGCAAGTGCCTTGGGCAGGATTTTCTCCCATATATGGGTTTTGTGATGCCTCCTTTGCTCCAGTCTGCACAACTTAAGCCCGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgtctaacaaacaattaaaaagaacaaaacataatatgtacctttgttgcagGCATGGGCCAGACTTTGCAAGTGCCTTGGCCAGGATTTCCTTCCTTACATGAATGTTGTCATGCCCCCCTTGCTTCAATCTGCTCAGCTTAAGCCTGATG
gtctaac putative branch site (score: 2)
cctttgtt putative PPT
aaacaattaaaaagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctttttgcataagctacagagaccttcacttaaatgttctgcatttctttgtcttttaaatggacaaatgcttaggaatactttttgtctaacaaacaatttttttgataagtcttttgtctaacaaacaattaaaaagaacaaaacataatatgtacctttgttgcagGCATGGGCCAGACTTTGCAAGTGCCTTGGCCAGGATTTCCTTCCTTACATGAATGTTGTCATGCCCCCCTTGCTTCAATCTGCTCAGCTTAAGCCTGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT