Sequence
atgc intronic sequence ATGC exonic sequence...tctttagtggtctttatgatcactgttttggtttgaaagattctaaatattcgtgacatcctttatgctaatttcttaactgcttaatcttaaattgcagGATTATTTTGCTGATGAAATTGGAGTTTTATCTCCCAATCAGTTGCAGGCTGATGAATTATATGCTGGTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os02g06300.1 (Oryza sativa), 3'ss of exon 9
tctttagtggtctttatgatcactgttttggtttgaa-agattctaaatattcgtgacatcctttatgctaatttcttaactgcttaatcttaaattg-cagGATTATTTTGCTGATGAAATTGGAGTTTTATCTCCCAATCAGTTGCAGGCTGATGAATTATATGCTGGTGAG
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tttataattaactcttctaaaaatcaaatgctacacccatcatcttcatcatccttatctatgtagagacaccatgctgagttttt--ttttaaataaacagGAATATGTTGCAGATGAAATTGGAGTATTATCTCCCAATCAGATGCAAGTTAGTGAACTTTACGCTGGCGAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G16700.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------------------------------tctttagtggtctttatgatcactgttttg--gtttgaaagattctaaatattcgtgacatcctttatgctaatt-tcttaactg--cttaatcttaaattgcagGATTATTTTGCTGATGAAATTGGAGTTTTATCTCCCAATCAGTTGCAGGCTGATGAATTATATGCTGGTGAG
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gtacagtacctttcctattttttgatcccctatttttgccaataaagatttagttttgtggtgacaaattatcagtataaatcttaaatatgactgcaaacaaatttgaacaagctctagtctatcattggtaaaactttggtcattttggtgactactgactaaaattctctgaactaatctgattactaaattacagGATTATTTTGCTGATGAAATTGGAGTTTTATCTCCCAGTCAACTACAAGTTGAAGAATTGTATGCTGGTGAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 9
-tctttagtggtcttta--tgatcactgttttggtttgaaagattctaaatattcgtgacatcctttatgctaatttcttaactgcttaatcttaaattgcagGATTATTTTGCTGATGAAATTGGAGTTTTATCTCCCAATCAGTTGCAGGCTGATGAATTATATGCTGGTGAG
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aattcaaacaagctctagtctatcattggtgaaaacttggtcattatggtgactactgactactaatattctttgaactaatctgatta---ctaaattacagGATTATTTTGCTGATGAAATTGGAGTTTTGTCTCCTAGTCAACTACAAGTTGAAGAATTGTATGCTGGTGAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G33480.1 (Glycine max), 3'ss of exon 3
-tctttagtggtcttta--tgatcactgttttggtttgaaagattctaaatattcgtgacatcctttatgctaatttcttaactgcttaatcttaaattgcagGATTATTTTGCTGATGAAATTGGAGTTTTATCTCCCAATCAGTTGCAGGCTGATGAATTATATGCTGGTGAG
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aattcaaacaagctctagtctatcattggtgaaaacttggtcattatggtgactactgactactaatattctctgaactaatctgatta---ctaaatgacagGATTATTTTGCTGATGAAATTGGAGTTTTGTCTCCTAGTCAACTACAAGTTGAAGAATTGTATGCTGGTGAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G08650.1 (Arabidopsis thaliana), 3'ss of exon 9
----tctttagtggtctttatgatcactgttttggtttgaaagattctaaatattcgtgacatcctttatgctaatttcttaactgcttaatcttaaattgcagGATTATTTTGCTGATGAAATTGGAGTTTTATCTCCCAATCAGTTGCAGGCTGATGAATTATATGCTGGTGAG
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taattctttcaggaaaaatttgagaa-tgtttaagcttttaagaacgcttacttgtgtttcactagtatccttcatgttctcagttttgcatc---aattgcagGATTATTTTGCGGATGAAGTCGGAGTTCTATCTCCAAATCAAATTCAAGTGGATGAATTATATGCGGGTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatattcgtgacatcctttatgctaatttcttaactgcttaatcttaaattgcagGATTATTTTGCTGATGAAATTGGAGTTTTATCTCCCAATCAGTTGCAGGCTGATGAATTATATGCTGGTGAG
ttaatcttaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctttagtggtctttatgatcactgttttggtttgaaagattctaaatattcgtgacatcctttatgctaatttcttaactgcttaatcttaaattgcagGATTATTTTGCTGATGAAATTGGAGTTTTATCTCCCAATCAGTTGCAGGCTGATGAATTATATGCTGGTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - tggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctta