Sequence
atgc intronic sequence ATGC exonic sequence...atggccaaacccttaattttttcttttcagagaatacttaaagcaatttgtttgttgttgacctttcagaaacacttttgacatgtttcttgtgatttagATGAATGCAGTTCTTGGAAGAATTGCTTCTACAGCACAAGAGTTGGCTCATTATCATTCAGGGGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0333g00070.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os06g08730.1 (Oryza sativa), 3'ss of exon 4
atggccaaacccttaattttttctt----ttcagagaatacttaaagcaatttgtttgttgttgacctttcagaaacacttttgacatgtttcttgtgatttagATGAATGCAGTTCTTGGAAGAATTGCTTCTACAGCACAAGAGTTGGCTCATTATCATTCAGGGGATG
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---ggcatatatttatttatgcaataagatatttaagatatctagagtttctttcatgaggaaattgttcaattaagatgattcat-tatcttctaactttcagATGAATGCAGTTCTCGGAAGAATCACTGCTACTACCCAGGAATTGGCCCATTATCATTCAGGAGATG
upper sequence: Vv00s0333g00070.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G15510.1 (Glycine max), 3'ss of exon 4
atggccaaacccttaattttttcttttcagagaatacttaaagcaatttgtttgttg--ttgacctttcagaaacacttttgacatgtttcttgtgatttagATGAATGCAGTTCTTGGAAGAATTGCTTCTACAGCACAAGAGTTGGCTCATTATCATTCAGGGGATG
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--gtactttttaggaaagccataagtgcaattataattcttagtagttcatttgcaggcttgagtatcatctcatggtgttctgttgttttttattgcttagATGAATGGCGTTCTTGAAAGAATTGCTTCCACAGCGCATGAGTTGGCTCATTACCATTCAGGAGATG
upper sequence: Vv00s0333g00070.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G48520.1 (Arabidopsis thaliana), 3'ss of exon 4
atggccaaacccttaattttttct-tttcagagaatacttaaagcaatttgtttgttgttgacctttcagaaacacttttgacatgtttcttgtgatttagATGAATGCAGTTCTTGGAAGAATTGCTTCTACAGCACAAGAGTTGGCTCATTATCATTCAGGGGATG
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---gtttgatacatgtcctacacaattgtaaagtggaatgcaattattttggtttttgataagtttgtgatgtttccttttgtat-tttactgtgatttagATGAATGGAGTTCTAGGAAGACTGGCTTCCACTTCTCAAGAGCTGGCGCATTATCATTCTGGCGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgtttgttgttgacctttcagaaacacttttgacatgtttcttgtgatttagATGAATGCAGTTCTTGGAAGAATTGCTTCTACAGCACAAGAGTTGGCTCATTATCATTCAGGGGATG
ttttgac putative branch site (score: 3)
tgtttctt CT-rich tract
tgattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggccaaacccttaattttttcttttcagagaatacttaaagcaatttgtttgttgttgacctttcagaaacacttttgacatgtttcttgtgatttagATGAATGCAGTTCTTGGAAGAATTGCTTCTACAGCACAAGAGTTGGCTCATTATCATTCAGGGGATG
- - ccaaacc
- - - - - - - - - - - - - - - agaatac
- - - - - - - - - - - - - - - - - - - -aaagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgtt