Sequence
atgc intronic sequence ATGC exonic sequence...tgtgtgaacttgcatatgttattactctatgtggtgtgatattcagtcatgcttgcctgtcatgtatttattataattaataaatagtggttgcttgtagTCAGGTTTGTCATCCATCACAGCCTAAGTAAATCAATGGAGACATACTACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0087g00070.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os11g48090.4 (Oryza sativa), 3'ss of exon 11
-tgtgt-gaacttgcata-tgttattactctatgtggtgtgatattcagtcatgcttgcctgtcatgtatttattataattaataaat---agtggttgcttgtagTCAGGTTTGTCATCCATCACAGCCTAAGTAAATCAATGGAGACATACTACCAG
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ataagtagcagttacagactggtgatatcgaacaaattggactatt-----atgtttgca-attacatatctaagaaataaattaaatctcattttgtttctgtagTCAGGTTTGTGATTCACCACAGCCTTAGTAAATCTATGGAAACATACTACCAG
upper sequence: Vv02s0087g00070.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G34860.1 (Glycine max), 3'ss of exon 10
tgtgtgaacttgcatatgttattactctatgtggtgtg-atattcagtcatgcttgcctgtcatgta-tttattataattaataaatagtggttgcttgtagTCAGGTTTGTCATCCATCACAGCCTAAGTAAATCAATGGAGACATACTACCAG
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tgaatgtttttgcaactgacat--ccccagtggacgtgcatattgtatttgctttaccttcattgaagctgataacatttaatgctagatattttcatgtagTCAGGTTTGTCATCCATCACAGTTTGAGTAAATCAATGGAAACATACTACCAG
upper sequence: Vv02s0087g00070.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G31360.1 (Arabidopsis thaliana), 3'ss of exon 10
---------tgtgtgaacttgcatatgttattactctatgtggtgtgatattcagtcatgcttgcctgtcatgtatttattataattaataaatagtggttgcttgtagTCAGGTTTGTCATCCATCACAGCCTAAGTAAATCAATGGAGACATACTACCAG
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ttcttaaaatcattatatttctaaaaaccaccatccttcgcgttttattaatca-ccattcttac--------tatcttctctaactgatacatggggcattgctgtagTCAGGTTTGTCATCCACCACAGTTTGAGCAAATCAATGGAGACTTACTACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcatgcttgcctgtcatgtatttattataattaataaatagtggttgcttgtagTCAGGTTTGTCATCCATCACAGCCTAAGTAAATCAATGGAGACATACTACCAG
aattaat putative branch site (score: 3)
tgtcatgtatttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgtgaacttgcatatgttattactctatgtggtgtgatattcagtcatgcttgcctgtcatgtatttattataattaataaatagtggttgcttgtagTCAGGTTTGTCATCCATCACAGCCTAAGTAAATCAATGGAGACATACTACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
tgtgtga
- - - - - -gcatatg
- - - - - - - - - - - - - - -tgtggtg
- - - - - - - - - - - - - - - - - - - - - - agtcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaat