Sequence
atgc intronic sequence ATGC exonic sequencegtagatatcatgaaattggtcacaacttttctcaatcatgttttatattgtgctgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGTCGAAATTCCCACAAGATCATTGAATACTTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 17
-------gtagatatcatgaaattggtcaca-acttttctcaatcatgttttatattgtgct-gtctctcacaccgatggtattgttc-atcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGTCGAAATTCCCACAAGATCATTGAATACTTTGAG
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gtaccaaccaacctacaaaccgtttgttgtgtatttcttttctttgtatctcctatcctctttgatacttaatgaaatgttctttttccggcagCTTTTGTTGATGAAAAGAGGAGGGCAAGTGATCTACTCAGGACCATTAGGCCGAAACTCCCACAAGATTGTAGAATACTTTGAG
upper sequence: Vv09s0002g03560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 18
------------gtagatatcatgaaattggtcacaacttttctcaatcatgttttatattgtgctgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGTCGAAATTCCCACAAGATCATTGAATACTTTGAG
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gtaccaaccaacctacaaaccatttg-ttgtgtatttcttttctttgt-atctcctatcctctttaatgcttaatgaaatattcttttttcgccagCTTTTGTTGATGAAAAGAGGAGGACAAGTGATCTACTCAGGACCATTAGGCCGAAATTCCCACAAGATTACGGAATACTTTGAG
upper sequence: Vv09s0002g03560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G02220.1 (Glycine max), 3'ss of exon 17
gtagatatcatgaaattggtcacaacttttctcaatcatgttttat----attgtgctgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGTCGAAATTCCCACAAGATCATTGAATACTTTGAG
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-------gtaccaactaactcataatttgtgtcatattttctttatctccattgctctttggtagataaatattttcttgtgtaccagTTGTTGTTGATGAAGAGAGGAGGGCAAGTGATCTACTCAGGACCATTAGGAAGGAATTCACACAAGATTATAGAATATTTTGAG
upper sequence: Vv09s0002g03560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 16
gtagatatcatgaaattggtcacaacttttctcaatcatgttttatattgtgctgtctct----cacaccgatgg---------tattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGTCGAAATTCCCACAAGATCATTGAATACTTTGAG
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----gtatcaacaaact---cataatttgtatgtgttatatgtttcttctctttatctccattgctctttggtagataaacatttcttgtgcaccagTTGTTGTTGATGAAGAGAGGAGGACAAGTGATCTACTCAGGACCATTAGGAAGGAATTCACTTAGGATTATAGAATATTTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcaatcatgttttatattgtgctgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGTCGAAATTCCCACAAGATCATTGAATACTTTGAG
ctctcac putative branch site (score: 3)
atcatgttttatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagatatcatgaaattggtcacaacttttctcaatcatgttttatattgtgctgtctctcacaccgatggtattgttcatcagCTGCTACTGATGAAGAGAGGAGGGCAAGTGATATATTCAGGACCTCTGGGTCGAAATTCCCACAAGATCATTGAATACTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA