Sequence
atgc intronic sequence ATGC exonic sequence...tttgggctctgtgagttgagttgtggaaatttggtatttcaacgctaagaaaatcggatatctactaacagcaattatatatttcttttgaaccatgcagATATTAATGCATGCCCTTTCCAGACCTCCATTTGGAAATTATCGTGTTTGGTGGTCTCTTGCAGATTCCAAATATGCAGGGACTGCATTGTTTGTTAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09970.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g18200.1 (Oryza sativa), 3'ss of exon 2
----tttgggctctgt--gagttgagttgtggaaatttggtatttcaacgctaagaaaatcggatatctactaacagcaattatatatttcttttgaaccatgcagATATTAATGCATGCCCTTTCCAGACCTCCATTTGGAAATTATCGTGTTTGGTGGTCTCTTGCAGATTCCAAATATGCAGGGACTGCATTGTTTGTTAAGA
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aagctacagtcttttttttggtcccttcatgactgtttagtatattgcatttg------ttgtgctccaagaaattgttctaagatcacatctcgatgccatgcagGTAGTGCTGCGTGCTTTGTCGAGTCCACCTTTTAAAGACTATCGTGTCTGGTGGTCTCTTTCAGACTCCAAATATGCAGGCACAGCTATGATTATAAAGA
upper sequence: Vv17s0000g09970.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G170291_T01 (Zea mays), 3'ss of exon 2
tttgggctctgtgagttgagttgtggaaatttggtatttcaacgctaagaaaatcggatatctactaacagcaattatat-atttcttttga-accatgcagATATTAATGCATGCCCTTTCCAGACCTCCATTTGGAAATTATCGTGTTTGGTGGTCTCTTGCAGATTCCAAATATGCAGGGACTGCATTGTTTGTTAAGA
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tcctagat-tatgatttctatctgtgtcgtttgctacattgg-attcagtggcttgacaacaaaattgttacattactgtcatacttcttgatgtcaagcagGTAGTTCTACGTGCTTTGTCAGCTTCACCTTTCAAAGACTACCGTGTCTGGTGGTCTCTTTCAGATTCAAAATATGCTGGGACAGCTATGTTTATAAAGA
upper sequence: Vv17s0000g09970.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G36610.1 (Glycine max), 3'ss of exon 2
tttgggctctgtgagttgagttgtggaaatttggtat-ttcaac-gctaagaaaatcggatatctactaacagcaattatatatttcttttgaaccatgcagATATTAATGCATGCCCTTTCCAGACCTCCATTTGGAAATTATCGTGTTTGGTGGTCTCTTGCAGATTCCAAATATGCAGGGACTGCATTGTTTGTTAAGA
|| || | | ||| | || ||| ||||| | || | ||| || || | | | | |||| ||| | |||||||| || | | ||| ||||| || || ||||| || |||| ||||||||||||||||||||||| || ||||||||||| ||| | | || || |
-ttatgcaccaaaacatgaacaaaacgatactgttatgttcaattgatataatcatcatattactttctattATTTTGACACATTTGTTT-AACTTATGCAGATTTTGACACGTGCACTTTCTGCTCCACCTTTTGGGAACTATCACGTTTGGTGGTCTCTTGCAGATTCAAAGTATGCAGGGACAGCACTACTGGTGAAAA
upper sequence: Vv17s0000g09970.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G48425.1 (Arabidopsis thaliana), 3'ss of exon 2
---tttgggctctgtgagt-tgagttgtgga--aatttggtatttcaacgctaagaaaatcggatatctactaacagcaattatatatttcttttgaaccatgcagATATTAATGCATGCCCTTTCCAGACCTCCATTTGGAAATTATCGTGTTTGGTGGTCTCTTGCAGATTCCAAATATGCAGGGACTGCATTGTTTGTTAAGA
|| || | | | || |||| || | | | | | || || | || | | | | || | ||| | | ||||||| || | | || || || || || ||||||||||||||| | |||||||||||||| || || || || ||||||||||| || ||||| || || |
attttaaaagaatgcgggagccacttatggagtaacaaactctcttgttgtttggataacattcaagct--tgatattagttctgggaaactt----aacttgcagATTTTGACACGGGCTCTCTCAAGTCCACCATTTGGAAATTATGGGGTTTGGTGGTCTCTCGCGGACTCGAAGTATGCAGGGACAGCTTTGTTAGTGAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taagaaaatcggatatctactaacagcaattatatatttcttttgaaccatgcagATATTAATGCATGCCCTTTCCAGACCTCCATTTGGAAATTATCGTGTTTGGTGGTCTCTTGCAGATTCCAAATATGCAGGGACTGCATTGTTTGTTAAGA
tactaac putative branch site (score: 0)
aattatatatttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgggctctgtgagttgagttgtggaaatttggtatttcaacgctaagaaaatcggatatctactaacagcaattatatatttcttttgaaccatgcagATATTAATGCATGCCCTTTCCAGACCTCCATTTGGAAATTATCGTGTTTGGTGGTCTCTTGCAGATTCCAAATATGCAGGGACTGCATTGTTTGTTAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - ttgtgga
- - - - - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacagcaa