Sequence
atgc intronic sequence ATGC exonic sequencegtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcctcaagatagtgaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G09100.1 (Glycine max), 3'ss of exon 7
gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcctcaagatagtgaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
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-------attgaaattgcataaaagcacatcagtaatttcc--ttatccatg--cttaatttttta-ttactctcactatttttattttctttccct----aatgcatgaatgc---agTTCATCACATTCGGGTTCGCGTGTACTCCATTGTACTTCGTGTGGGAGAAGGTGATTGGGATGCACGACACAAAGAGCATTTGTTTGAGGGCACTTGCAC
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA1403S00200.1 (Glycine max), 3'ss of exon 1
gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcctcaagatagtgaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
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----------gactttccttgaacg-at---aatttcctt--accatggttaaataatttttattactcacactacattttttattttattttctttccctaatttatgaatgc---agTTCATCACATTTGGATTTGCGTGTACTCCGTTGTACTTCGTGTGGGAGAAGGTGATTGGGATGCACGACACAAAGAGCATTTGTTTGAGGGCACTTGCAC
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G17810.2 (Glycine max), 3'ss of exon 8
gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgact-tggcctcaagatagtgaaacttttactgat---aaaaat---gcatgggtgt-tgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
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---------------------------ttaaatacgtaattgacgggagaaaaaggaaacatttgagtatggatgaataatagagaaattctaactaactccaaatattgaatgtgggtgcatgcagTTCATCACATTCGGTTTTGCCAGTACTCCACTGTACTTTGTCTGGGAGAAGGTAATTGGGATGCATGACACAAAGAGCATTTGCATAAGGGCACTAGCAA
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G09140.1 (Glycine max), 3'ss of exon 6
gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcctcaagatagtgaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
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---------------ccttccag-actttcgtcgaatgatggtttccttaccattcttaaatttttattactcacagtatatatattttttttctttccttaatgtctgaatgc---agTTCATCACATTTGGATTTGCGTGCACCCCATTATATTTTGTGTGGGAGAAGGTGATTGGGATGCACGACACAAAGAGCATTTGGTTAAGGGCACTTGCAC
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G42640.1 (Glycine max), 3'ss of exon 7
gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcctcaagatagtgaaacttttactga-taaaaatgca----tgggtgt---tgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
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-----------------------tttgtt-aaataatt--gaagaaaaag-aaaggaaacatttgagtatggatgaaaacagagaaattctaactaactacaaatattgaattgggtgtgcatgcagTTCATCACATTCGGTTTTGCTAGTACTCCACTGTACTTTGTCTGGGAGAAGGTAATTGGGATGCATGACACAAAAAGCATTTGCATAAGGGCACTAGCAA
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S211_67V6.1 (Physcomitrella patens), 3'ss of exon 6
-------------------gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgact-tggcctcaagatagt----gaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTG-GCCA
| | ||| |||| | |||| | | | | |||| || | | ||| ||| ||| | | || | ||| | || || | | || || |||| || || |||| || || || ||| ||||||||||||||||||||||||| ||||| || |||| | ||| | || || || | |||
gtactcaaggcacccatcattctaaaaaactattcgtcgatgtgccatattaatcctctgaacgtcagg--actgaagctacttactgtggacgaagcatcttctctgaagggtctaacgacattgaaaatct--tgctgcagTTCATCACTGTTGGCTTTGCCGTCACTCCATTGTACTTCGTGTGGGAGAAGGTGATCGGGATTCACAACACGAAGAGTCTTCCCTTGAGAGCGGTATGCC-
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ18760 (Selaginella moellendorffii), 3'ss of exon 6
gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcctcaagatagtgaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCAT-GACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
||| || | || || || | ||| | | | | |||| | | || | | |||||||||| ||||| || || || ||||| |||||||||||||||||||| | || || | ||| || | || || | ||| ||
-------------------------------------------------gtaagaaagatcatcga--tgatct-atgatcttc--gttcctggagctaaacttcccattgtctcgcagTTTATTACGTTTGGATTTGCTTGCACGCCCTTGTACTTCGTGTGGGAGAAGATAATTGGCGTCCATAGAAGTCCAAGGTTCCTACTTCGAGCAGCTGCCC-
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ36050 (Selaginella moellendorffii), 3'ss of exon 6
gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcctcaagatagtgaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCAT-GACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
| | | | | ||| | || ||| | | ||| | | | | |||| | | || | | |||||||||| ||||| ||||| || ||||| |||||||||||||||||||| | || || | ||| || | || || | ||| ||
----------------------------------------gtaagaaagatcatcgttctt-ctcactatgaactatgatcttc--gttcctggagctaaacttcccatcgtctcgcagTTTATTACGTTTGGATTCGCTTGCACGCCCTTGTACTTCGTGTGGGAGAAGATAATTGGCGTTCATAGAAGTCCAAGGTTCCTACTTCGAGCAGCTGCCC-
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ34222 (Selaginella moellendorffii), 3'ss of exon 6
----------------------------------------gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcct--caagatagtgaaactttt-actgataaaaatgcatgg-gtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
| | | || ||| ||| || || | | | ||| | || | | | |||| | | ||| | | | | | | | | |||| || || ||||| |||||||| ||||| |||||| |||||||||||||| | | || || || | || | || | | || |||||||
gtcattctcatgctcatccatcaggcaagcttttttctttcctcgagctcttctttacttcttcttcttcttcttcttcttcttcttcccgagaagaaagaaagaggaaagtttgccaagtttttctttcttctgattcctcgattctcgcgatggaaaacagTTCATCACGTTTGGATTCGCATGCACGCCGCTGTACATCGTGTGGGAGAAGATTCTGGGCATTCACAAGACGGCCAATCTCCCCGTGCGAGCGCTGGCCA
upper sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ21839 (Selaginella moellendorffii), 3'ss of exon 6
---------------------gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggt----agacgtaatgactgacttggcct--caagatagtgaaactttt-actgataaaaatgcatgg-gtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
| | || || ||| || | | | | || || || | ||| | || | | | |||| | | ||| | | | | | | | | |||| || || ||||| |||||||| ||||| |||||| |||||||||||||| | | || || || | || | || | | || |||||||
gttctcatgctcatccatcaggcaagcttttttctttcctcgagctcttctttacttcttcttcttcttcttcccgagaagaaagaaagaggaaagtttgccaagtttttctttcttctgattcctcgattctcgcgatggaaaacagTTCATCACGTTTGGATTCGCATGCACGCCGCTGTACATCGTGTGGGAGAAGATTCTGGGCATTCACAAGACGGCCAATCTCCCCGTGCGAGCGCTGGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacttggcctcaagatagtgaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
tactgat putative branch site (score: 2)
ttttactgataaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcctcaagatagtgaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA