Sequence
atgc intronic sequence ATGC exonic sequence...ctttttgctggtagagaatcaccttatatccacttaactgctaaaacaaatattttggagggaaatttattgtgataaatcattttcctttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCGAACTTACGATATCAGCTATTGTGTGGAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g18630.1 (Oryza sativa), 3'ss of exon 6
--------------ctttttgctggtagaga-atcaccttatatccacttaa---ctgctaaaacaaatattttggagggaaatttattgtgataaatcattttcctttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCGAACTTACGATATCAGCTATTGTGTGGAGTT
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gtgggttcatcacagttttgattcatagagtcataagaaaagattcttctaagcttttctgatctaatcattctggaatttaacctttgggtctttatttttctaatcttatatatagGTTATCGGTTACCATTCCTTCTGTCAGCACAAATGCCCTTGGCTATGGAGCCTTCCTAGGACTATATGCAAACTTGCGGTATCAACTATTGTGTGGACTG
upper sequence: Vv12s0034g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G030776_T01 (Zea mays), 3'ss of exon 4
-ctttttgctggtagagaatcaccttatatccacttaac-tgctaaaacaaatattttggagggaaatttattgtgataaatcattttcctttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCGAACTTACGATATCAG-CTATTGTGTGGAGTT
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gtgtgtttatcatattactcaaagtcatataaaagcatccttctaaggc---ttctctgatgcatccttttaattattatattgctacccttcaatt--tagGTTATCGGTGACTATTCCCTCTATCAGCACCAATGCTCTTGGTTACGGAGCTTTCCTAGGGCTCTATGTGAACTTGCGATATCAAATTGCTCTGTGGACT-
upper sequence: Vv12s0034g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G016457_T01 (Zea mays), 3'ss of exon 6
ctttttgctggtagagaatcaccttatatccacttaactgctaaaacaaatattttggagggaaatttattgtgataaatcattttcctttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCGAACTTACGATATCAGCTATTGTGTGGAGTT
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-gtaggtttatcatagtattcaagtacatataatagcatccttttgaggcttctctggttcatccttttaattattatattactacccttcaatt--tagGTTATCGGTGACTATTCCCTCTATCAGCACCAATGCTCTTGGTTATGGAGCTTTCCTAGGACTCTATGCTAACTTGCGTTATCAATTGCTATGTGGAGTA
upper sequence: Vv12s0034g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G19780.1 (Glycine max), 3'ss of exon 6
--------------------------------------------ctttttgctggtagagaatcaccttatatccacttaactgctaaaacaaatattttggagggaaatttattgtgataaatcattttcct--ttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCGAACTTACGATATCAGCTATTGTGTGGAGTT
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gtaagcagggttgaaacccaacttatgttcaatagcattcaattcatttaattgtttaatactatagttttaccca--tggttggttaaattatgagtgctatattaattttatctttgcatatgttgttcctgaattgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGCTTTTCTTGGAATTTATGCTAACCTGAGATATCAACTGTTATGTGGGTTT
upper sequence: Vv12s0034g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G24690.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------ctttttgctggtagagaatcaccttatatccacttaactgctaaaacaaatattttggagggaaattta--ttgtgataaatcattt---tcctttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCGAACTTACGATATCAGCTATTGTGTGGAGTT
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gtcatcacatatcttctccttctatcataggattacaaatctcttgattcactcgggcag-catctctgctttttttccagctcatgcttaactacttgtgcctttgttctgacagAGTATCTGTGACGGTCCCATCTATCAGCACAAATGCTCTTGGTTATGGTGCATTTCTTGGAATATATGCCAACTTGAGATATCAGCTGTTATGTGGATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaaatattttggagggaaatttattgtgataaatcattttcctttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCGAACTTACGATATCAGCTATTGTGTGGAGTT
tcattttccttttttt CT-rich tract
aaatttattgtgataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttttgctggtagagaatcaccttatatccacttaactgctaaaacaaatattttggagggaaatttattgtgataaatcattttcctttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCGAACTTACGATATCAGCTATTGTGTGGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - ttgctgg
- - - - - - - - - -cacctta
- - - - - - - - - - - - - - -ccactta
- - - - - - - - - - - - - - - - - - actgcta
- - - - - - - - - - - - - - - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - agggaaa