Sequence
atgc intronic sequence ATGC exonic sequence...ctttttatagggttataacacagttctcttttagtttcatcttcctcttgattgatgcttcatctcactcatgtgtactagttttaagagtcttttacagATTGAGAAAAATGTGTTTGTTATTTTCTTCTCTGGAGAAAGAGTGAAGAACAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTACCCGTTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g13410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os10g10500.1 (Oryza sativa), 3'ss of exon 6
--ctttttatagggttataacacagttct--cttttagtttcatcttcctcttgattgat-gcttcatctcactcatgtgtactagttttaagagtcttttacagATTGAGAAAAATGTGTTTGTTATTTTCTTCTCTGGAGAAAGAGTGAAGAACAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTACCCGTTTA
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gtaaaacattagttttacaaatttatttttcctgctagttttattattctgaagttcagttgttctttctctcttttgaatgcttgtactata-----ttgacagGTCATTAAAAATGCATTTGTTATATTCTACTCTGGGGAGAGAGCAAAATCCAAGATTGTGAAAATATGTGATGCTTTTGGTGCCAACCGTTACCCATTTC
upper sequence: Vv18s0001g13410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G058910_T01 (Zea mays), 3'ss of exon 6
ctttttatagggttataacacagttctcttttagtttcatcttcctcttgattgat-gcttcatctcactcatgtgtactagttttaagagtcttttacagATTGAGAAAAATGTGTTTGTTATTTTCTTCTCTGGAGAAAGAGTGAAGAACAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTACCCGTTTA
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ccatttatcagcacactaagtcttctgttctaactttaagtttgatgtttattctttgcttgaacttatctatctgc-caaccttttgtatggttatgcagGTAACGAAAAATGCATTTGTCATATTCTACTCTGGAGAGAGAGCAAAAACCAAAATTCTGAAGATATGTGATGCCTTTAATGCGAACCGTTACCCGTTTC
upper sequence: Vv18s0001g13410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G03040.1 (Glycine max), 3'ss of exon 6
-ctttttatagggttataacacagttctcttttagtttcatcttcctcttgattgatgcttcatctcactcatgtgtactagttttaagagtc---ttttacagATTGAGAAAAATGTGTTTGTTATTTTCTTCTCTGGAGAAAGAGTGAAGAACAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTACCCGTTTA
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attttttctgattctggaaatctactcttctattgctactagttacttct-actgt--cttgatctttttta-gttcataaagtcatagcctccctttttacagGTTCATAAAAATGTATTTGTTGTCTTTTATTCTGGAGAAAGAGTTAAAAGCAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTATCCTTTCT
upper sequence: Vv18s0001g13410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G03010.1 (Glycine max), 3'ss of exon 5
--ctttttatagggttataacacagttctcttttagtttcatcttcctcttgattgat-gcttcatctcactcatgt-gtactagttttaagagtcttttacagATTGAGAAAAATGTGTTTGTTATTTTCTTCTCTGGAGAAAGAGTGAAGAACAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTACCCGTTTA
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ttatttttttattctggaaatttactcttctattgctactagttacttctactttcttagtcttttttggttcataaagtcattgcctcc----ctttttacagGTTCATAAAAACGTATTTGTTGTCTTTTATTCCGGAGAAAGAGTTAAAAGTAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTATGCTTTCT
upper sequence: Vv18s0001g13410.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G39080.1 (Arabidopsis thaliana), 3'ss of exon 6
------ctttttatagggttataacacagttctcttttagtttcatcttcctcttgattgatgcttcatctcactcatgtgtactagttttaagagtcttttacagATTGAGAAAAATGTGTTTGTTATTTTCTTCTCTGGAGAAAGAGTGAAGAACAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTACCCGTTTA
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gccaggactttcttgaacatggaaggctgatctggttagaaaagaaatatacttttctgtgta-tccattggagt--tgacttcgaacttataaa---tattgcagGCTGAGAAAAATGTTTTTGTTGTCTTCTATTCCGGGGAAAGAGCGAAAAGCAAAATTCTGAAAATATGTGAAGCTTTTGGGGCCAATCGTTATCCTTTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgattgatgcttcatctcactcatgtgtactagttttaagagtcttttacagATTGAGAAAAATGTGTTTGTTATTTTCTTCTCTGGAGAAAGAGTGAAGAACAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTACCCGTTTA
atctcac putative branch site (score: 3)
tcttttac putative PPT
tagttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttttatagggttataacacagttctcttttagtttcatcttcctcttgattgatgcttcatctcactcatgtgtactagttttaagagtcttttacagATTGAGAAAAATGTGTTTGTTATTTTCTTCTCTGGAGAAAGAGTGAAGAACAAAATTCTGAAAATATGTGATGCTTTTGGAGCAAATCGTTACCCGTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - ataacac
- - - - - - - - - - - - - - - - - - - - - - - - - - tgatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcactc
