Sequence
atgc intronic sequence ATGC exonic sequence...tagctaacaaaacagagaagaattacttcacttgttttagatatggtataataattttaatctttctcttctatttgtgttcactttgttacagaggaagAATCGGATGGATCTGATACAGTTGCTGATAATCAACCTGTTCAAGGGAGCTTTTTGAACCTCTTGCCTCCCCAACTAGAAGTGTCTCGAGATCAGAATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G04410.3 (Glycine max), 3'ss of exon 13
--------------------------------------tagctaacaaaacagagaa-gaattac---ttcacttgttttagatatgg-tataataattttaatctttctcttctatttgtgttcactt---tgttacaga---------ggaagAATCGGATGGATCTGATACAGTTGCTGATAATCAACCTGTTCAAGGGAGCTTTTTGAACCTCTTGCCTCCCCAACTAGAAGTGTCTCGAGATCAGAATGA
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gtaggctttctcatgctttgggaccattatattccttccagctcttctcgtttagtttgtgttacacctttgtgtttcttgcatgtaaatgtaatcataaaaatctttttcatgtgatcaaactggctgacatatgatagattgtgaatcagAAACACCAGAGGCGTCCGATACGTCTGCAAATGATCAACCTGCTCAAGGAAGCTTTTTGAAGCTCTTGCCACCCCAGTTAGAGGTATCTCCTCATCGCGA---
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G04410.1 (Glycine max), 3'ss of exon 13
--------------------------------------tagctaacaaaacagagaa-gaatta---cttcacttgttttagatatgg-tataataattttaatctttctcttctatttgtgttcact---ttgttacaga---------ggaagAATCGGATGGATCTGATACAGTTGCTGATAATCAACCTGTTCAAGGGAGCTTTTTGAACCTCTTGCCTCCCCAACTAGAAGTGTCTCGAGATCAGAATGA
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gtaggctttctcatgctttgggaccattatattccttccagctcttctcgtttagtttgtgttacacctttgtgtttcttgcatgtaaatgtaatcataaaaatctttttcatgtgatcaaactggctgacatatgatagATTGTGAATCAGAAACACCAGAGGCGTCCGATACGTCTGCAAATGATCAACCTGCTCAAGGAAGCTTTTTGAAGCTCTTGCCACCCCAGTTAGAGGTATC---------------
upper sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA13G18670.1 (Glycine max), 3'ss of exon 12
-----------------------------------------------------------tagctaacaaaacagagaagaattacttcacttgttttagatatggtataataattttaatctttctcttctatttgtgttcac--tttgttacagaggaagAATCGGATGGATCTGATACAGTTGCT------GATAATCAACCTGTTCAAGGGAGCTTTTTGAACCTCTTGCCTCCCCAACTAGAAGTGTCTCGAGATCAGAATGA
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gtaggctttctcttgctttgggaccattatattccttccaactccccttttagtttgtgttgttctttgtatggtacacctttatgtttcttgcat--gttatcatataaattttttcatgtgatcaaactggctgacatgatagattgtga-atcagAAACATCAGAGGGGTCTGATACTGATACTTCTGCAAATGATCAACCTGCTCAAGGAAGCTTTTTGAAGCTCTTGCCACCCCAGTTAGAGGTATCTCCTCA--------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtataataattttaatctttctcttctatttgtgttcactttgttacagaggaagAATCGGATGGATCTGATACAGTTGCTGATAATCAACCTGTTCAAGGGAGCTTTTTGAACCTCTTGCCTCCCCAACTAGAAGTGTCTCGAGATCAGAATGA
ttttaat putative branch site (score: 3)
ataattttaatctttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagctaacaaaacagagaagaattacttcacttgttttagatatggtataataattttaatctttctcttctatttgtgttcactttgttacagaggaagAATCGGATGGATCTGATACAGTTGCTGATAATCAACCTGTTCAAGGGAGCTTTTTGAACCTCTTGCCTCCCCAACTAGAAGTGTCTCGAGATCAGAATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - -aacaaaa
- - - - - - - -agaagaa
- - - - - - - - - - - - acttcac