Sequence
atgc intronic sequence ATGC exonic sequence...tatatttccttttgccttcaaaaaaagattgctcttttgatctgcaaaagttgaataactggctaataggattattatttttatccatgggtggtttcagTTATAGGCCTTCTCCTTTTTTTATATTGGATGAAGTCGATGCTGCATTGGACAATCTGAATGTTGCTAAGGTTGCTGGATTCATCCGATCAAAATCATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G416069_T01 (Zea mays), 3'ss of exon 9
-tatatttccttttgccttcaaaaaaagattgctcttttgatctgcaaaagttgaataactggctaataggatt--attattttta--tccatgggtggtttcagTTATAGGCCTTCTCCTTTTTTTATATTGGATGAAGTCGATGCTGCATTGGACAATCTGAATGTTGCTAAGGTTGCTGGATTCATCCGATCAAAATCATGT
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gtaaagcactgttataggggaaatatatatatatttctgcatgttcacctcttgcctcaccttgtgcctcaatcaaatcacttaaaagttttgtggcaatttcagTTTTAGGCCATCACCGTTCTTCATATTGGACGAAGTAGATGCTGCTCTGGACAATTTAAATGTGGCCAAGGTTGCCGGGTTTATCAGATCAAAATCATGT
upper sequence: Vv07s0005g03440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G416069_T02 (Zea mays), 3'ss of exon 8
tatatttccttttgccttcaaaaaaagattgctcttttg-atctgcaaaagttgaataactggctaataggatt--attattttta--tccatgggtggtttcagTTATAGGCCTTCTCCTTTTTTTATATTGGATGAAGTCGATGCTGCATTGGACAATCTGAATGTTGCTAAGGTTGCTGGATTCATCCGATCAAAATCATGT
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-----gcactgttataggggaaatatatatatatttctgcatgttcacctcttgcctcaccttgtgcctcaatcaaatcacttaaaagttttgtggcaatttcagTTTTAGGCCATCACCGTTCTTCATATTGGACGAAGTAGATGCTGCTCTGGACAATTTAAATGTGGCCAAGGTTGCCGGGTTTATCAGATCAAAATCATGT
upper sequence: Vv07s0005g03440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G18470.1 (Glycine max), 3'ss of exon 17
--------------------------------------------------------------------------------tatatt--tccttttgccttcaaaaaaagattgctcttttgatctgcaaaagttgaataactggctaataggattattatttttatccatgggtggtttcagTTATAGGCCTTCTCCTTTTTTTATATTGGATGAAGTCGATGCTGCATTGGACAATCTGAATGTTGCTAAGGTTGCTGGATTCATCCGATCAAAATCATGT
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gtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaatatactgacacatctcacataagcctaaaactattttgctgatatctgatcttc--atgttccattaacatggttccctacttgcttcttg-----tttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT
upper sequence: Vv07s0005g03440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G04300.2 (Glycine max), 3'ss of exon 18
----------------------------------------------------------------------------------------------tatatt--tccttttgccttcaaaaaaagattgctcttttgatctgcaaaagttgaataactggctaataggattattatttttatccatgggtggtttcagTTATAGGCCTTCTCCTTTTTTTATATTGGATGAAGTCGATGCTGCATTGGACAATCTGAATGTTGCTAAGGTTGCTGGATTCATCCGATCAAAATCATGT
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gtaggagttgtttgtactactacttggattagaacaagaatattttataactactctgaatttgtgttttaataacaaaaattcatctaagcaatatactgacacatctcacataagcctaaaactattttgctgatatcttatcttcttgttcc--attaatatggtt-----ccctacttacttcttgtttcagTTACAAGCCTTCCCCGTTTTTTATATTGGACGAAGTTGATGCTGCGTTGGACAACTTGAATGTTGCCAAGGTTGCTGGCTTTATTCGTTCAAAATCTTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaagttgaataactggctaataggattattatttttatccatgggtggtttcagTTATAGGCCTTCTCCTTTTTTTATATTGGATGAAGTCGATGCTGCATTGGACAATCTGAATGTTGCTAAGGTTGCTGGATTCATCCGATCAAAATCATGT
taataggattattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatatttccttttgccttcaaaaaaagattgctcttttgatctgcaaaagttgaataactggctaataggattattatttttatccatgggtggtttcagTTATAGGCCTTCTCCTTTTTTTATATTGGATGAAGTCGATGCTGCATTGGACAATCTGAATGTTGCTAAGGTTGCTGGATTCATCCGATCAAAATCATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - tgccttc
- - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - -gcaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - gaataac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatagga