Sequence
atgc intronic sequence ATGC exonic sequencegttgagttcaatcttccgaaatctaccactgttagcttttcttggtttgagtttttctttccttgattattgtcgtctctctttgatatctagGATGCCACAGCCAAGATCATTGAGCACATGGAAGGGAAACCAGACCTTATCATTGGAAACTACACTGATGGGAATTTGGTGGCATCTCTCATGGCTACTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 7
----------------gttgagttcaatcttccgaaatctaccactgttagcttttcttggtttgagtttttctttccttgattattgtcgt-ctctctttgatatc--tagGATGCCACAGCCAAGATCATTGAGCACATGGAAGGGAAACCAGACCTTATCATTGGAAACTACACTGATGGGAATTTGGTGGCATCTCTCATGGCTACTA
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gtatagtatacctgatacctgattcaatattct----ttaactggtatctattttccctcttatgaagtttcctt--ctgagttatgaccatactttgattcatattaatagGATGCAACAGCCAAGATTCTTGAGTTCATGGAAGGGAAACCAGATCTTGTTATTGGAAATTACACTGATGGAAATTTGGTAGCATCACTAATGGCTAGAA
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G04990.1 (Glycine max), 3'ss of exon 8
gt-tgagttcaatcttccgaaatctaccactgttagcttttcttggtttgagtttttctttccttgatta-ttgtcgtctctctttgatatctagGATGCCACAGCCAAGATCATTGAGCACATGGAAGGGAAACCAGACCTTATCATTGGAAACTACACTGATGGGAATTTGGTGGCATCTCTCATGGCTACTA
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gtatatatatgtgctataagaacctttacttggtagcttttatctgtattgaattttccatc--tgatcagtttacggttcatgttaata----gGATGCGACAGCCAAGATTCTCAACCTCATGGAAGGAAAACCAGATCTTATTATTGGAAATTACACTGATGGGAATTTGGTAGCATCTCTTATGGCTAACA
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G33240.1 (Glycine max), 3'ss of exon 7
gttgagttcaatcttccgaaatctaccactgttagcttttcttggtttgagtttttctttccttgattattgtcgtctctctttgatatctagGATGCCACAGCCAAGATCATTGAGCACATGGAAGGGAAACCAGACCTTATCATTGGAAACTACACTGATGGGAATTTGGTGGCATCTCTCATGGCTACTA
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-----gtatatatatgctaacacttgttcggtagcttctacctgtaatgaattttgctatcc--gatca--gtttatggtttttgttaa-tagGATGCCACAGTCAAGATTCTCAACCTCATGGATGGAAAACCAGATCTTATTATTGGAAATTACACTGATGGGAATTTGGTAGCATCTCTTATGGCTAACA
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G39070.1 (Glycine max), 3'ss of exon 8
----gttgagttcaatcttccgaaatctaccactgttagcttttcttggtttgagtttttctttccttgattattgtcgt-ctctctttgatatc--tagGATGCCACAGCCAAGATCATTGAGCACATGGAAGGGAAACCAGACCTTATCATTGGAAACTACACTGATGGGAATTTGGTGGCATCTCTCATGGCTACTA
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gtatacctgattcaatattct----cttactggtatctattttccctcttgtgaagtttcctt--cttagttatgaccatactttggttcatattgatagGATGCAACAGCCAAGATTCTTGAGTTCATGGAAGGGAAACCAGATCTAGTTATTGGAAATTACACTGATGGAAATTTGGTAGCATCACTAATGGCTAGAA
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G37180.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------gttgagttcaatcttccgaaatctaccactgttagcttttcttggtttgagtttttctttccttgattattgtcgtctctc-tttgatatctagGATGCCACAGCCAAGATCATTGAGCACATGGAAGGGAAACCAGACCTTATCATTGGAAACTACACTGATGGGAATTTGGTGGCATCTCTCATGGCTACTA
| || | | | | || ||| |||||| |||| | | | | || ||||| | | | | || |||||||| ||| | ||||| | || ||||||| ||||| ||||| || || || ||||| || ||||| || ||||||||||| |||||||||| ||
gtaaaatcatatataagaatggtagatttttttttccaacaattatattttctatgttttattctcaagatatttcattatgaaactataaaatattatgagtagGATGCAACAACAAAGATATTGGATATTTTGGAAGGAAAACCTGACCTAATAATCGGGAACTATACGGATGGAAACTTGGTGGCATCACTCATGGCTAATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttggtttgagtttttctttccttgattattgtcgtctctctttgatatctagGATGCCACAGCCAAGATCATTGAGCACATGGAAGGGAAACCAGACCTTATCATTGGAAACTACACTGATGGGAATTTGGTGGCATCTCTCATGGCTACTA
ctttgat putative branch site (score: 5)
ttgtcgtctctcttt CT-rich tract
tttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgagttcaatcttccgaaatctaccactgttagcttttcttggtttgagtttttctttccttgattattgtcgtctctctttgatatctagGATGCCACAGCCAAGATCATTGAGCACATGGAAGGGAAACCAGACCTTATCATTGGAAACTACACTGATGGGAATTTGGTGGCATCTCTCATGGCTACTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG