Sequence
atgc intronic sequence ATGC exonic sequencegttggtttcttagttgttttttgagatcatcttgataaaaaaatataatcactacactctgatgtgctgcctacttttcagGTCTTGTTGGATATCCGAGTGATGACATTAATAAGTTCCTGTGGATGGTTCACATAGGAGTGGGGGTATTCCCTCACATCAAGGAACCTGATTATCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g01590.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g44360.2 (Oryza sativa), 3'ss of exon 13
gttggtttcttagttgttttttgagatcatcttgataaaaaaatataatcactacactctgatgt--gctgcctacttttcagGTCTTGTTGGATATCCGAGTGATGACATTAATAAGTTCCTGTGGATGGTTCACATAGGAGTGGGGGTATTCCCTCACATCAAGGAACCTGATTATCTG
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gttgatgctttgtggacttctttagaacaaatcaataactag---tggccccagatccctgacgttgggtgtttactttacagGTCTTGTTGGCTACCCTAGCGATGATATTAACAAGTTCCTTTGGATGGTTCGCATAGGAGGTGGTGTATTCCCTCACATCAAGGAACCTGATTATCTT
upper sequence: Vv11s0016g01590.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 16
---gttggtttcttagttgttttttg-agatcatcttgataaaaaaatataatcactacactctgatgtgctgcctacttttcagGTCTTGTTGGATATCCGAGTGATGACATTAATAAGTTCCTGTGGATGGTTCACATAGGAGTGGGGGTATTCCCTCACATCAAGGAACCTGATTATCTG
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gttattacatttttggcttctagaagcaaacaattaccttaatcaagtgctgtcatt-cacctaaaactgatgattctttttcagGGCTTATTGGCTACCCAAGTGATGATATTAATAAGTTCCTCTGGATGGTTCGAATCGGAGGTGGTGTATTCCCTCAAATAAAGGAAGCAGATTACCTT
upper sequence: Vv11s0016g01590.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G060611_T03 (Zea mays), 3'ss of exon 18
-----------------------------------------------------------------------gttggtttcttagtt----gttttttgagatc-----atcttgataaaaaaata----taatcactacactctgatgt-----gctgcctacttttcagGTCTTGTTGGATATCCGAGTGATGACATTAATAAGTTCCTGTGGATGGTTCACATAGGAGTGGGGGTATTCCCTCACATCAAGGAACCTGATTATCTG
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gtacagcaatgtcgtccccagaaaaagcagcttgggaaatcttcaattctttagatgtcaaatatgtgcttgttgtctttggaggtttgtgctttttgacacataggagaagcaaaaaaaaagtagcttgaaccattggcctcaaatcctgacaaatgtttcctcaacagGACTTGTTGGATACCCTAGCGATGATATCAATAAGTTCCTTTGGATGGTACGAATAGGAGGTGGTGTGTTCCCTCACATTAAGGAGCCAGATTATCTT
upper sequence: Vv11s0016g01590.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G060611_T02 (Zea mays), 3'ss of exon 18
gttggtttcttagttgttttttgagatcatcttgataaaa--aaatataatcactacactctgatgt-----gctgcctacttttcagGTCTTGTTGGATATCCGAGTGATGACATTAATAAGTTCCTGTGGATGGTTCACATAGGAGTGGGGGTATTCCCTCACATCAAGGAACCTGATTATCTG
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gtttgtgcttt--ttgacacataggagaagcaaaaaaaaagtagcttgaaccattggcctcaaatcctgacaaatgtttcctcaacagGACTTGTTGGATACCCTAGCGATGATATCAATAAGTTCCTTTGGATGGTACGAATAGGAGGTGGTGTGTTCCCTCACATTAAGGAGCCAGATTATCTT
upper sequence: Vv11s0016g01590.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 18
gttggtttcttagttgttttttgagat---catcttgataaaaaaatataatcactacactctgatgtgctgcctacttt-tcagGTCTTGTTGGATATCCGAGTGATGACATTAATAAGTTCCTGTGGATGGTTCACATAGGAGTGGGGGTATTCCCTCACATCAAGGAACCTGATTATCTG
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-----gtatgtgtttggctcatgacattgccatcttgtgtattatctctgaagtatattctctgatcggacaatcatttcattagGTCTTATTGGTTACCCTAGTGATGACATCAACAAGTTTCTGTGGATGGTTCGTATTGGAGGCGGCGTCTTTCCACATATAAAGGAAGCTGATTATCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatcttgataaaaaaatataatcactacactctgatgtgctgcctacttttcagGTCTTGTTGGATATCCGAGTGATGACATTAATAAGTTCCTGTGGATGGTTCACATAGGAGTGGGGGTATTCCCTCACATCAAGGAACCTGATTATCTG
ctctgat putative branch site (score: 4)
cctacttttc putative PPT
ttgataaaaaaatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtttcttagttgttttttgagatcatcttgataaaaaaatataatcactacactctgatgtgctgcctacttttcagGTCTTGTTGGATATCCGAGTGATGACATTAATAAGTTCCTGTGGATGGTTCACATAGGAGTGGGGGTATTCCCTCACATCAAGGAACCTGATTATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA