Sequence
atgc intronic sequence ATGC exonic sequence...tccgtattaatttctctgcccttttcatttttgtctttgatttaatcaatgatattttttacattctaatctatggtttgattcatttggaactttgaagGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g43150.1 (Oryza sativa), 3'ss of exon 7
-tccgtattaatttctctgcccttttcatttttgtctttgatttaatcaatgatattttttacattctaatctatggtttga-ttcatttggaactttgaagGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
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agacttactcaaagctcttttttttttctagttactcttttctccaacgttcatttccttcataagttcgtaccttactggagttaactttgtgcttt--agGCTATCGCTGGTGAAGCTGGTGTGCCATTTTTTTATCGGGCAGGTTCTGAATTTGAGGAAAT
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G004040_T01 (Zea mays), 3'ss of exon 7
tccgtattaatttctctgcccttttcattt-ttgtctttgatttaatcaatgatattttttacattctaatc---tatggtttgattcatttggaactttga---agGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
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-----atatgccattgtgccatctgcagctgttatcctatagtt--tttgtgctactgctgttgtcttgaccaaacataccttactggagctggctttttgctccagGCCATTGCTGGAGAAGCTGGCGTACCATTCTTTTACCGAGCAGGTTCTGAATTTGAGGAAAT
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G156069_T01 (Zea mays), 3'ss of exon 7
----tccgtattaatttctctgcccttttcatttttgtctttgatttaatcaatgatattttttacattctaatctatggtttgattcatttggaactttgaagGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
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ggacgccattgtgccatctccagctgttatcctatagtttttgtgcta-ttgctgttgtcttgaccaaacatacct-tactggagctgtctttttgcccc--agGCCATTGCTGGAGAAGCTGGTGTACCATTCTTTTACCGAGCAGGCTCTGAATTTGAGGAAAT
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G08160.1 (Glycine max), 3'ss of exon 7
tccgtattaatttctctgcccttttcatttttgtcttt-gatttaatcaat-gatattttttac-attctaatctatg---gtttgattcatttggaactttgaagGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
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-----actgaaatc-ctacattattgacatcaaccttttgagttaatcaattgaaatttatcattgttatgatctaatagtgtttgctttatctgggaccttgaagGCTATTGCTGGAGAAGCAGGTGTCCCATTTTTCTATCGAGCAGGCTCTGAATTTGAGGAGAT
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G29780.1 (Glycine max), 3'ss of exon 7
tccgtattaatttctctgcccttttcatttttgtcttt-gatttaatcaat-gatattttttac-attctaatctatg---gtttgattcatttggaactttgaagGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
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-----actaaaatc-ctacattattgacatcaaccttttgagttaatctattgaaatttatcattgttatgatctaatagtgtttgctttatatgggaccttgaagGCTATTGCTGGAGAAGCTGGTGTTCCGTTTTTCTATCGAGCAGGCTCTGAATTTGAGGAGAT
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G13140.1 (Glycine max), 3'ss of exon 7
tccgtattaatttctctgcccttttcatttttgtct-ttgatttaatcaat-gatattttttacattctaatctatggtttgattcatttggaactttgaagGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
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aatggaaaaacaacactactttgttattgtctacctcttgagtaaatctattgatatgtattgtgatctgat--agtgtttgctttatatgggaccttgaagGCTATTGCTGGAGAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGAT
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G53170.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------------------------tccgtattaatttctctgccc-----ttttcatttttgtctttgatttaatcaatgatattttttac---------attctaat--------ctatggtttgattcatttggaactttgaagGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
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gtaagttctcacatagttgttatattgtcgtctcttgttgaattggttattacttattatgagtgtgtgttttcacagtcatattccacttaataataaattcttattacgctaccaatattctgattgattttacaataagttaacacggtttaaattttgaagGCAATTGCTGGAGAAGCTGGAGTACCCTTCTTCTATAGAGCTGGATCTGAATTTGAAGAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatgatattttttacattctaatctatggtttgattcatttggaactttgaagGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
atattttttacattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccgtattaatttctctgcccttttcatttttgtctttgatttaatcaatgatattttttacattctaatctatggtttgattcatttggaactttgaagGCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - -ctctgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg