Sequence
atgc intronic sequence ATGC exonic sequencegttaagtgcttaaataccttttgattatttcatttacttttggtcccaatgtttaactgatgttattcatttacttaatcttacttcttatttgccttttgattatttctttactgtctaacatagtttctggcacatccagGAGAACCAACCAATTGCTCCTTGGAATACCAAAGAAGATATATTACTTTTCTTCAAGCTCTATGATCCTGAAAAAGAAGACCTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G071441_T01 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 17
gttaagtgcttaaataccttttgattatttcatttacttttggtcccaatgtttaactgatgttattcatttacttaatcttacttcttatttgccttttgattatttctttactgtctaacatagtttctggcacatccagGAGAACCAACCAATTGCTCC---TTGGAATACCAAAGAAGATATATTACTTTTCTTCAAGCTCTATGATCCTGAAAAAGAAGACCTAAG
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---------------------------------------gtaacatttttattta-tggaagttgtataccattttcatagcatgaatcattcatatccaaattctgtcctt-ttgacaaactacattgtt-----atttagGATTTACGTCCCATTGCACCGCCTGACAAGACAAAGGATGATATATTACTTTTCTTCAAGTTATATGATACTGAAAAAGAGGAGCTACG
upper sequence: GRMZM2G071441_T01 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA14G04890.1 (Glycine max), 3'ss of exon 17
gttaagtgcttaaataccttttgattatttcatttacttttggtcccaatgtttaactgatgttattcatttacttaatcttacttcttatttgccttttgattatttctttactgtctaacatagtttctggcacatccagGAGAACCAACCAATTGCTCC---TTGGAATACCAAAGAAGATATATTACTTTTCTTCAAGCTCTATGATCCTGAAAAAGAAGACCTAAG
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---------------------------------------gtaacatttgtattta-tggaagttgcataccattttcatagcatgaatcattaatatccaaatttctgtccttttgacaaactatgttgtt-----atttagGATGTATGTCCCATTGCACCGCCTGACAAGACAAAGGATGATATATTACTTTTCTTCAAGTTATATGATCCTGAAAAAGAGGAGCTACG
upper sequence: GRMZM2G071441_T01 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA20G11330.1 (Glycine max), 3'ss of exon 9
gttaagtgcttaaataccttttgattatttcatttacttttggtcccaatgtt-taactgatgttattcatttacttaatcttacttcttatttgccttttgattatttctttactgtctaacatagtttctggcacatccagGAGAACCAACCAATTGCTCC---TTGGAATACCAAAGAAGATATATTACTTTTCTTCAAGCTCTATGATCCTGAAAAAGAAGACCTAAG
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------------------------------------------gtaacatttttattagggaaattgaatactaatttaatagca-tgaaactttaatgctcaattaaaacactgtcctgttggaaatctgcattcatgtttagGATTCACGTCCCATCGCACCACCTGACAAGACCAAGGATGATATATTACTTTTCTTCAAGCTATATGATCCTGAAAAAGAGGAGCTGCG
upper sequence: GRMZM2G071441_T01 (Zea mays), 3'ss of exon 13
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 17
gttaagtgcttaaataccttttgattatttcatttacttttggtcccaatgtttaactgatgttattcatt-tacttaatcttacttcttatttgccttttgattatttctttactgtctaacatagtttctggcacatccagGAGAACCAACCAATTGCTCC---TTGGAATACCAAAGAAGATATATTACTTTTCTTCAAGCTCTATGATCCTGAAAAAGAAGACCTAAG
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------------------------------------------gtaatattgtctaatcaat-tcagccatcatagttgctgctg--taatacttgggttcccttcag--ccatgttattgattatatctatt--cttattcagGATTTACACCCAAACCCTCCACCTGAGAAGACAAAGGATGATATTTTGCTTTTCTTCAAGCTTTATGATCCTGAGAAGGAAGAGCTAAA
upper sequence: GRMZM2G071441_T01 (Zea mays), 3'ss of exon 13
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 3'ss of exon 17
--------------------------------gttaagtgc--ttaaataccttttgattatttcatttact-tttggtcccaatgtttaactgatgttattcatttacttaatcttacttcttatttgcctttt-----gattatttctttactgtctaacatagtttctggcacatc-cagGAGAACCAACCAATTGCTCC---TTGGAATACCAAAGAAGATATATTACTTTTCTTCAAGCTCTATGATCCTGAAAAAGAAGACCTAAG
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gtatatcttcactgcataatccggattttatccttaagaacatttaatcagtgtttgagttatttttcggctattcaggactggtgcataattgttgct-tggaattaataatttctatgtacaatgtccttttctggcaagatattttcctgcactttagttaactccatataatacctcagGATCTGCGTCCTATTCCTCCACCTGAAAAAACTAAAGAAGATATTCTGCTTTTCTTCAAGCTTTATGACCCTGAGAAAGAAGAGCTCCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttgccttttgattatttctttactgtctaacatagtttctggcacatccagGAGAACCAACCAATTGCTCCTTGGAATACCAAAGAAGATATATTACTTTTCTTCAAGCTCTATGATCCTGAAAAAGAAGACCTAAG
gtctaac putative branch site (score: 2)
ttttgattatttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaagtgcttaaataccttttgattatttcatttacttttggtcccaatgtttaactgatgttattcatttacttaatcttacttcttatttgccttttgattatttctttactgtctaacatagtttctggcacatccagGAGAACCAACCAATTGCTCCTTGGAATACCAAAGAAGATATATTACTTTTCTTCAAGCTCTATGATCCTGAAAAAGAAGACCTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG