Sequence
atgc intronic sequence ATGC exonic sequence...ggagcttctatacattgagcagtagaatctgaaatgatacttgtgagacttataactcagtgtatggctgttttaccctcaattgaattgcttttggcagGTACTTAGCAATCCAGAAAAGACGCCCATTCACACCTTTCTTTGTAACTATGATTTGAGTGACATGCCATCTGGTACCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00570.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G822842_T01 (Zea mays), 3'ss of exon 1
-----ggagcttctatacattgagcagtagaatctgaaatgatacttgtgagacttataactcagtgtatggctgttttaccctcaattgaattgcttttggcagGTACTTAGCAATCCAGAAAAGACGCCCATTCACACCTTTCTTTGTAACTATGATTTGAGTGACATGCCATCTGGTACCAAG
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accttcaaattgctttggatttgacagtcc--ttcgaaaagtt--ctattagattgtcacatttatattgatttgcctatttcacaactct-ttactctcggcagGTGGTTAGTAACCCAGAGAAGACACCACTTCACACCTTTTTCTGTACCTATGATTTGAGTGACATGCCTGCTGGAACCAAG
upper sequence: Vv17s0000g00570.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G37640.1 (Glycine max), 3'ss of exon 2
-ggagcttctatacattgagcagtagaatctgaaatgatacttgtgagact-tataactcagtgtatggctgttttaccctcaattgaattgcttttg-gcagGTACTTAGCAATCCAGAAAAGACGCCCATTCACACCTTTCTTTGTAACTATGATTTGAGTGACATGCCATCTGGTACCAAG
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aactggctgtctagtttctcaattatattctgcgttcatgtgtggaattctacgtagttttaccaatttgtgtgtgaca---aattgactgacttaaatgcagGTTCTCAGCAATCCAGAGAGGACACCTATCCATACCTTTTTTTGCAATTATGATTTGAGTGACATGCCAACTGGTACCAAG
upper sequence: Vv17s0000g00570.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G17450.1 (Glycine max), 3'ss of exon 8
--ggagcttctatacattgagcagtagaatctgaaatgatacttgtga--gacttataactcagtgtatggctgttttaccctcaattgaattgcttttggcagGTACTTAGCAATCCAGAAAAGACGCCCATTCACACCTTTCTTTGTAACTATGATTTGAGTGACATGCCATCTGGTACCAAG
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tggatgtctactttcacaattatatgggttcacacgtggaattctacattgttgtatgaatttgtgtgtgacagtgacaaact-gactgacctaaat---gcagGTTCTCACCAATCCAGAGAGGACACCTATCCATACCTTCTTTTGCAATTATGATTTGAGTGACATGCCAGCTGGTACCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agacttataactcagtgtatggctgttttaccctcaattgaattgcttttggcagGTACTTAGCAATCCAGAAAAGACGCCCATTCACACCTTTCTTTGTAACTATGATTTGAGTGACATGCCATCTGGTACCAAG
ttataac putative branch site (score: 2)
ttgctttt putative PPT
aattgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggagcttctatacattgagcagtagaatctgaaatgatacttgtgagacttataactcagtgtatggctgttttaccctcaattgaattgcttttggcagGTACTTAGCAATCCAGAAAAGACGCCCATTCACACCTTTCTTTGTAACTATGATTTGAGTGACATGCCATCTGGTACCAAG
- - - - - - - - - - - - - - - gaaatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aattgaa