Sequence
atgc intronic sequence ATGC exonic sequence...tacaaatgcaatggtctgtaaattgtttgagtaatttatgctaaattgttgcacatatttgtgttaaccttgaaatgtggctcattatctatctcaacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os01g62900.1 (Oryza sativa), 3'ss of exon 17
-tacaaatgcaatggtctgtaaattgtttgagtaatttatgctaaattgttgcacatatttgtgttaaccttgaaatgtggctcattatctatctcaacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG
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gtgtttaactaatttcctttgcacaact---attatgtttgccgcttt-tagtacataccttaattaa--tggagttattcttc--tataaattgcaacagTGCTGCGGTATTCCATAATGCAAGCACACGGTTCTGTGATGGGGCTCGCTTTGGTCTAGGTGCTGAG
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G375504_T03 (Zea mays), 3'ss of exon 16
--------------------------------------------------------tacaaatgcaatggtctgtaaattgtt-tgagtaatttatgctaaattgttgcacatatttgtgttaaccttgaaat-gtggctcattat--ctatctcaacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG---------------------------------
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gtacgttaccagcgcctctttttttattcatttttactgtttgtgcagtcggttaataaatgtcctttgttttggccgccactgtgtacaatgttattttgtttggagttcaatgatgattgatacctgatgttatatttcacttctacaattgcaacagTGCTGCTGTATTTCATAATGCGAGTACACGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCCGAGGTACGCCCTATCTTTGGAGTAAATGGGATTATT
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G375504_T02 (Zea mays), 3'ss of exon 16
--------------------------------------------------------tacaaatgcaatggtctgtaaattgtt-tgagtaat-ttatgctaaattgttgcacatatttgtgttaaccttgaaatgtggctcattat--ctatctcaacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG
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gtacgttaccagcgcctctttttttattcatttttactgtttgtgcagtcggttaataaatgtcctttgttttggccgccactgtgtacaatgttattttgtttggagttcaatgatgattgatacctgatgttatatttcacttctacaattgcaacagTGCTGCTGTATTTCATAATGCGAGTACACGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCCGAG
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA03G12240.1 (Glycine max), 3'ss of exon 17
tacaaatgcaat--ggtctgtaaattgtttgagta-atttatgctaaattgttgcacatatttgtgttaaccttgaaatgtggctcattatc-tatctcaacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG
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-ttaaatagaattcattctctcacaacttagactatgaataactcatgttgcttcatgtcattgacttgaatat---atgcgacttttccttgtgtacaaacagTGCTGCTGTATTCCACAATGCAAGTACGCGGTTTTGTGATGGAGCACGCTTTGGGCTTGGTGCAGAG
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA01G24530.1 (Glycine max), 3'ss of exon 18
tacaaatgcaatggtctgtaaattgtttgagtaatttatgctaaattgttgcacatatttgt-gttaaccttgaaatgtggctcattatct---atctcaacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG
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----tattttagcatccattctttcataacttagactatgaataactcttgttgcttcatgtcattgactggaatatacgcaactttgccttgtgtacaaacagTGCTGCTGTATTCCACAATGCAAGTACACGGTTTTGTGATGGAGCACGCTTTGGGCTTGGCGCAGAG
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA18G40770.1 (Glycine max), 3'ss of exon 19
tacaaatgcaatggtctgtaaattgtttgagtaatttatgctaaattgttgcacatatttgtgttaaccttgaaatgtggctcattatctatctc---aacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG
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tcctgcttcattgtgtttctatgcataaatatgaataaatttagtctagacttgatattgatgtcaga---ggaatatacatttttgcttgattctcaaacagTGCTGCTGTATTCCACAACGCAAGTACAAGGTTTTGTGATGGAGCTCGCTTTGGCCTTGGTGCAGAG
upper sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 14
tacaaatgcaatggtctgtaaattgtttgagtaatttatgctaaattgttgcacatatttgtgtt---aaccttgaaatgtggctcattatctatctc---aacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG
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------tgtttctttgcataactactctatgaaatatgattaagtctaatactagagttgatgttgatgactgaggaatatgcatttttgcttgattctcaaacagTGCTGCTGTATTCCACAATGCAAGTACAAGGTTCTGTGATGGAACTCGCTTTGGCCTTGGTGCAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttgcacatatttgtgttaaccttgaaatgtggctcattatctatctcaacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG
tgttaac putative branch site (score: 2)
tctatctc putative PPT
attatctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacaaatgcaatggtctgtaaattgtttgagtaatttatgctaaattgttgcacatatttgtgttaaccttgaaatgtggctcattatctatctcaacagTGCTGCAGTTTTCCATAATGCAAGTACCCGATTTTGTGATGGAGCACGTTTTGGACTTGGTGCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- caaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - gcacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttgaa