Sequence
atgc intronic sequence ATGC exonic sequence...taggaatgtagtgcattatatgatcaaattgtggatactccattttgcctatattacttcatttggtccagatgtttaacatgtcatctggttactgtagATTGGTGAGGGTGAAAAGCTAGTGAGGGCTCTTTTTGGAGTTGCCAGTTGCCGCCAGCCTGCTGTAATATTTGTTGATGAAATAGATTCACTTCTGTCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g02130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM5G874082_T03 (Zea mays), 3'ss of exon 7
-taggaatgtagtgcattatatgatcaaattgtggatactccattttgcctatattacttcatttggtccagatgtttaa-catgtcatctggttactgtagATTGGTGAGGGTGAAAAGCTAGTGAGGGCTCTTTTTGGAGTTGCCAGTTGCCGCCAGCCTGCTGTAATATTTGTTGATGAAATAGATTCACTTCTGTCTC
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ttcttaatatataatgatacacaactc--ttgtgtgcgttcaagaaaaaaagaatgaaaaccctgttttgagatagtgattcttattgtttttcttgtgcagATTGGTGAGGGTGAAAAACTTGTTCGGGCACTTTTTGGTGTGGCCAGTTGTCGTCAACCTGCTGTCATATTTGTGGATGAGATAGACTCATTATTATCTC
upper sequence: Vv14s0068g02130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G14440.1 (Glycine max), 3'ss of exon 6
--taggaatgtagt-gcattatatgatcaaattgtggatactccattttgcctatattacttcatttggtccagatgtttaacatgtcatct--ggttactgtagATTGGTGAGGGTGAAAAGCTAGTGAGGGCTCTTTTTGGAGTTGCCAGTTGCCGCCAGCCTGCTGTAATATTTGTTGATGAAATAGATTCACTTCTGTCTC
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tctgctgttttagttaggtcgtgtaaccataatccggaaa----actattctaatgtttctt-actgctctcaaatggtttccctctctgctatgataattatagATTGGTGAAGGTGAAAAGCTTGTAAGAGCCCTTTTTGGAGTTGCCAGTTGTCGTCAGCCAGCAGTAATTTTTGTTGATGAAATAGATTCGCTCCTGTCTC
upper sequence: Vv14s0068g02130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G18350.1 (Glycine max), 3'ss of exon 6
--taggaatgtagt-gcattatatgatca-aattgtggatactccattttgcctatattacttcatttggtccagatgtttaacatgtcatc-tggttactgtagATTGGTGAGGGTGAAAAGCTAGTGAGGGCTCTTTTTGGAGTTGCCAGTTGCCGCCAGCCTGCTGTAATATTTGTTGATGAAATAGATTCACTTCTGTCTC
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tctgtagttttagttaggtcgtgtagctataatcccagaaact--attgca---atgtttctcaatgctctgaaatggttcccctctctgttatgataattgtagATTGGTGAAGGTGAAAAGCTTGTAAGAGCCCTTTTTGGAGTTGCCAGCTGTCGTCAGCCAGCAGTAATTTTTGTTGATGAAATAGATTCGCTCCTGTCTC
upper sequence: Vv14s0068g02130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G27120.1 (Arabidopsis thaliana), 3'ss of exon 5
-taggaatgtagtgcattatatgatcaaattgtggatactccattttgcctatattacttcatt-tggtccagatgtttaac-atgtcatctggttactgtagATTGGTGAGGGTGAAAAGCTAGTGAGGGCTCTTTTTGGAGTTGCCAGTTGCCGCCAGCCTGCTGTAATATTTGTTGATGAAATAGATTCACTTCTGTCTC
|| | || | | || |||| ||| ||| || || || ||| | | | | |||||| || || || | | || ||||||| || |||||||||||||||||||| |||||||||||||| ||||||||||||||||| ||||||||||| |||||||||||||| || || ||||
gtatgtcagtgattttgttcctgctcaagatgtctatagcatgctt-attcat-ttgctttacggtcacctgcaaatttaacgatcacaaatg-taaatgcagATTGGCGAAGGTGAAAAGCTAGTGAGGGCCCTTTTTGGAGTTGCGAGTTGCCGCCAGCCTGCAGTAATATTTGTCGATGAAATAGATTCTCTACTATCTC
upper sequence: Vv14s0068g02130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S13_90V6.1 (Physcomitrella patens), 3'ss of exon 9
------------------------------------------------------------------------------------------taggaatgtagtgcattatatgatcaaattgtggatactccattttgcctatatta-cttcatttg---gtccagatgtttaacatgtcatctggttactgtagATTGGTGAGGGTGAAAAGCTAGTGAGGGCTCTTTTTGGAGTTGCCAGTTGCCGCCAGCCTGCTGTAATATTTGTTGATGAAATAGATTCACTTCTGTCTC
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gtgattttatatgcagtgaccagtattttgttaaatggtgtcaactgattgttcatgaatggactgttaacagattggttacacgtttttttggggtggagt-tatgaaacatctgaactatag-tacttt-tcttgaaaatattggcctcaaatatgtactcatcagtgtacaatgttgcttatggttggtagATTGGTGAAGGAGAAAAGCTTGTTAGAGCCCTCTTCGGAGTTGCCAGCTGCCGTCAGCCAGCTGTCATATTCATCGATGAGATTGACTCTTTGCTGTCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcctatattacttcatttggtccagatgtttaacatgtcatctggttactgtagATTGGTGAGGGTGAAAAGCTAGTGAGGGCTCTTTTTGGAGTTGCCAGTTGCCGCCAGCCTGCTGTAATATTTGTTGATGAAATAGATTCACTTCTGTCTC
gtttaac putative branch site (score: 3)
atattacttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggaatgtagtgcattatatgatcaaattgtggatactccattttgcctatattacttcatttggtccagatgtttaacatgtcatctggttactgtagATTGGTGAGGGTGAAAAGCTAGTGAGGGCTCTTTTTGGAGTTGCCAGTTGCCGCCAGCCTGCTGTAATATTTGTTGATGAAATAGATTCACTTCTGTCTC
- ggaatgt
- - - - - gtgcatt
- - - - - - - - - - - atcaaat
- - - - - - - - - - - - - - - - - -tactcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccagatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgtc