Sequence
atgc intronic sequence ATGC exonic sequencegttagtattatccttaacttgtatgaagtagtatcatttctggttatatcagttttctctattctcacctggtacttacattcatagGTATTATAAGTGGATTTTGGAACGCAATTTCCATGACTTGAACAAAGGAGTTCGTGGGAATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os07g46590.1 (Oryza sativa), 3'ss of exon 5
gttagtattatccttaacttgtatgaagtagtatcatttctggttatatcagttttctctattctcacctggtacttacattcatagGTATTATAAGTGGATTTTGGAACGCAATTTCCATGACTTGAACAAAGGAGTTCGTGGGAATCAG
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---gtaaatactttgtactaatgtaagtttatgttccttttattcat--cattgagataaaatcatttttcctaatta-attattagGTATTACAAATGGATTTTGGAGCGGAATTTCCAGAATCTCAACAAAGGAGTTCGTGGGAATCAG
upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 16
-----------gttagtatt-atccttaacttgtatgaagtagtatcatttctggttatatcagttttctctattctcacctg-gtacttacattcatagGTATTATAAGTGGATTTTGGAACGCAATTTCCATGACTTGAACAAAGGAGTTCGTGGGAATCAG
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gtaagtgcaattttagttctgaaatttttttcttttggaaaaatactattatcg--taagttcattttctaaattcctgttgatgtattcctttgtgtagGTATTATAAGTGGATTTTGGAACGTAATTTTCACAATTTGAACAAAGGAGTTCGTGGGAATCAG
upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 16
------gttagtattatccttaa------cttgtatgaagtagtatcatttctggttatatcagttttctctattctcacctggtacttacattcat--agGTATTATAAGTGGATTTTGGAACGCAATTTCCATGACTTGAACAAAGGAGTTCGTGGGAATCAG
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gtaagtgcaattttagttctgaaaaatttttcctttggaaaaatactattatca--taagttcactttctaaattcctgt-tgatgtattccttcgtttagGTATTATAAGTGGATTTTGGAACGTAATTTTCACAATTTGAACAAAGGAGTTCGTGGGAATCAG
upper sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: EFJ28029 (Selaginella moellendorffii), 3'ss of exon 15
gttagtattatccttaacttgtatgaagtagtatcatttctggttatatcagttttctctattctcacctggtacttacattcatagGTATTATAAGTGGATTTTGGAACGCAATTTCCATGACTTGAACAAAGGAGTTCGTGGGAATCAG
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-----------------------------------gtatggggttcaaataagtgtccacgtagtaatcct---cgttcgttttcagGTATTACAAATGGATTTTGGAGCGTAATTTCAGTGATCTGAACAAAGGCGTTCGTGGGAATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcatttctggttatatcagttttctctattctcacctggtacttacattcatagGTATTATAAGTGGATTTTGGAACGCAATTTCCATGACTTGAACAAAGGAGTTCGTGGGAATCAG
tacttac putative branch site (score: 1)
ttatatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtattatccttaacttgtatgaagtagtatcatttctggttatatcagttttctctattctcacctggtacttacattcatagGTATTATAAGTGGATTTTGGAACGCAATTTCCATGACTTGAACAAAGGAGTTCGTGGGAATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG