Sequence
atgc intronic sequence ATGC exonic sequencegtaagtacataaatgtcttcatcatgttcagcctgtataaaacattttggaactacttaaggcatcttatattgttctctttcatgactctatttttccttcctttttctaaatgtacaaatacagCTTGTGTTAGTCCTGCTGATACAAATGCAGAAGAGACCTTAAACACTTTGAAGTATGCAAATCGTGCTCGAAATATTCAGAACAAGGCAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G026560_T01 (Zea mays), 3'ss of exon 8
gtaagtacataaatgtcttcatcatgttcagcctgtataaaacattttggaactacttaaggcatcttatattgttctctttcatgactctatttttccttcctttttctaaatgtacaaatacagCTTGTGTTAGTCCTGCTGATACAAATGCAGAAGAGACCTTAAACACTTTGAAGTATGCAAATCGTGCTCGAAATATTCAGAACAAGGCAGTT--------
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---------------------------------------gtaggtct----actttttcagacatat-atcctagtcctggtgttgagggcacttaaatcatgctttgctac-tcttttcatgcagCATGCATTAGCCCTGCTGATATAAATGCAGAAGAAACCATAAACACACTCAAATATGCCAATCGCGCACGCAACATTCAAAACAAAGCAGTGGTAAACCG
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G10080.1 (Glycine max), 3'ss of exon 6
gtaagtacataaatgtcttcatcatgttcagcctgtataaaacattttggaactacttaaggcatcttatattgttctctttcatgactctatttttccttcctttttctaaatgtacaaatacagCTTGTGTTAGTCCTGCTGATACAAATGCAGAAGAGACCTTAAACACTTTGAAGTATGCAAATCGTGCTCGAAATATTCAGAACAAGGCAGTT
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-----------------aaaactgtgatga-taggtacaaactcaaatgatgagagttcagatatttttg--tgttttctatagtcaca-tgcatcatctaacctgtcagaaatgt-----tgcagCATGTGTTAGTCCTGCTGACACAAATGCTGAAGAGACATTGAACACTTTAAAGTATGCAAACCGTGCTCGTAACATTCAGAACAAGGCAGTT
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G36030.1 (Glycine max), 3'ss of exon 7
gtaagtacataaatgtcttcatcatgttcagcctgtataaaacattttggaactacttaaggcatcttatattgttctctttcatgactctatttttccttcctttttctaaatgtacaaatacagCTTGTGTTAGTCCTGCTGATACAAATGCAGAAGAGACCTTAAACACTTTGAAGTATGCAAATCGTGCTCGAAATATTCAGAACAAGGCAGTT
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----------------------------------gtactgtacttgctaggtagattta------tttattttttcactttttaatgtcacatgtatcatctaatctgtttggaatgc---tgcagCATGTGTTAGTCCTGCTGACACCAATGCTGAAGAGACATTGAACACTCTGAAGTATGCTAACCGTGCTCGCAACATTCAGAACAAGGCAGTT
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G37800.1 (Glycine max), 3'ss of exon 7
gtaagtacataaatgtcttcatcatgttcagcctgtataaaacattttggaactacttaaggcatcttatattgttctctttcatgactctatttttccttcctttttctaaatgtacaaatacagCTTGTGTTAGTCCTGCTGATACAAATGCAGAAGAGACCTTAAACACTTTGAAGTATGCAAATCGTGCTCGAAATATTCAGAACAAGGCAGTT
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-------------------------------------------gtactgaacttgctaggtggattttaaaaaattacactttttaatacacatgtatcatgtctaatctgtttgtaatgctgcagCATGTGTTAGTCCTGCTGACACCAATGCTGAAGAGACATTGAACACTCTGAAGTATGCTAACCGTGCTCGTAACATTCAGAACAAAGCAGTT
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G60930.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagtacataaatgtcttcatcatgttcagcctgtataaaacattttggaactacttaaggcatcttatattgttctctttcatgactctatttttccttcctttttctaaatgtacaaatacagCTTGTGTTAGTCCTGCTGATACAAATGCAGAAGAGACCTTAAACACTTTGAAGTATGCAAATCGTGCTCGAAATATTCAGAACAAGGCAGTT
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----------gtatggtttc-tcaaacatttcatttatgatcca----agtattagacagaactgttttcacccatctattggatcacataatttatgatc------tctgaatgt-----tgcagCTTGTGTAAGTCCCGCTGATACAAATGCTGAGGAAACTTTAAATACGCTCAAATACGCAAATCGTGCTCGCAATATTCAAAACAAAGCAGTG
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S80_21V6.1 (Physcomitrella patens), 3'ss of exon 7
gtaagtacataaatgtcttcatcatgttcagcctgtataaaacattttggaactacttaaggcatcttatattgttctctttcatgactctatttttccttcctttttctaaatgtacaaatacagCTTGTGTTAGTCCTGCTGATACAAATGCAGAAGAGACCTTAAACACTTTGAAGTATGCAAATCGTGCTCGAAATATTCAGAACAAGGCAGTT
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------------gtgattaccaactaatcagtttttcgtatacct------actttttagcaagtctcttgttgcttattctaatcgttttatttatttgtttattttc--------catttgcagCTTGTGTTAGTCCAGCAGACTCTAATGCAGAAGAGAACTTGAACACTTTAAAATACGCAAATCGAGCGCGGAACATACAAAATAAGCCAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttctctttcatgactctatttttccttcctttttctaaatgtacaaatacagCTTGTGTTAGTCCTGCTGATACAAATGCAGAAGAGACCTTAAACACTTTGAAGTATGCAAATCGTGCTCGAAATATTCAGAACAAGGCAGTT
ttctaaa putative branch site (score: 2)
tttttctaaatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtacataaatgtcttcatcatgttcagcctgtataaaacattttggaactacttaaggcatcttatattgttctctttcatgactctatttttccttcctttttctaaatgtacaaatacagCTTGTGTTAGTCCTGCTGATACAAATGCAGAAGAGACCTTAAACACTTTGAAGTATGCAAATCGTGCTCGAAATATTCAGAACAAGGCAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG