Sequence
atgc intronic sequence ATGC exonic sequence...gatacatgtttatgcgtcactgtctgcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G357734_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 3
--gatacatgtttatgcgtcactgtctgcttagttcacatttttgtcttggtgaa-----gcaagtttcagctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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catatagatgattatg-ataaaaatatatgatccaaaaataaatgaaatgaaaaacacgcacaagtttcaactgttgtttaaactccaaat------attgtttcagGCGTACTTCAAATACCACAAGATGCCTCAACCTAGGATCCTACAATTACCTTGGATTTGCAGCAGCAGATGAGTACTGCACTCCACTTGTGATCGAGTCT
upper sequence: GRMZM2G357734_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA02G07250.1 (Glycine max), 3'ss of exon 3
----gatacatgtttatgcgtcactgtctgcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattattgattcatt-gttgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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ttgaaatatatatatatttgttgtaaatt--ttaatttagagcttcagc---atgagaaatatatctgatgcctatttttcatactatttctcctcccaatgcagACGGACTGATAAAATAAGTAGATGCCTTAATTTGGGATCATACAACTATCTTGGTTTTGCGGCAGCAGATGAATACTGCACGCCTCGAGTAGTTGATACG
upper sequence: GRMZM2G357734_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 3
gatacatgtttatgcgtcactgtct-gcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattattgattcat-tgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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--tgtggattgaattattattattttatttaattttaagttagagctttagcatgagatatttatccgatgcctatttttcatactatttctcctaatgcagACGGACTGATAAAATAAGTAGATGCCTTAATTTGGGATCATACAACTATCTTGGTTTTGCGGCAGCAGATGAATACTGCACACCTAGAGTAGTTGATACG
upper sequence: GRMZM2G357734_T03 (Zea mays), 3'ss of exon 9
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 3'ss of exon 3
---gatacatgtttatgcgtcactgtctgcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacatta-ttgattcattgt-tgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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tatggtgcacaatgatttatggttgccc---tgatttacattct--ccagtgtaagctaaaactcataaatttttagtatctatcaactaatcgatttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCTTGGCTTTGCTGCATCGGATGAATACTGCACGCCACGTGTAATTGAATCA
upper sequence: GRMZM2G357734_T03 (Zea mays), 3'ss of exon 9
lower sequence: Vv17s0000g00500.t01 (Vitis vinifera), 3'ss of exon 3
--gatacatgtttatgcgtcactgtctgcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattatt-gattcattgt--tgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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ttaataaa-gtttttgtatggttgcttgttggg---agtctcttggattt-tgactcaacctgaaatatttggtggatcaattgatttggttcaatctcatgcagACGAACCACAAAGATAAGTAAGTGTCTTAACTTGGGGTCATACAATTACCTTGGATTTGCCGCATCAGATGAATTCTGCACACCACGTGTAATCGAGTCT
upper sequence: GRMZM2G357734_T03 (Zea mays), 3'ss of exon 9
lower sequence: EFJ32734 (Selaginella moellendorffii), 3'ss of exon 3
gatacatgtttatgcgtcactgtctgcttagttcacatttttgtcttggtgaag--caagtttcagctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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-gtaggtgataactttttg-tgtttggt-acttagaattctcgtgcttttggaagtttcttttcgggagcttccctgatccttggattttttgttttgatagTCGGCCCTTCAAGACCCGGAGATGTCTCAACCTTGGCTCTTACAACTACCTTGGATTTGCTGCCGCTGACGAGTACTGTACGCCGCGGGTGATCGAGTCT
upper sequence: GRMZM2G357734_T03 (Zea mays), 3'ss of exon 9
lower sequence: EFJ20689 (Selaginella moellendorffii), 3'ss of exon 3
gatacatgtttatgcgtcactgtctgcttagttcacatttttgt-cttggtgaagcaagtttc----agctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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-gtaggtgataactttttg-tgtttggt-acttagaattctcgtgcttttggaagtttcttttcgggagct-tccctgatccttggattttattttttttgatagTCGGCCCTTCAAGACACGGAGATGTCTCAACCTTGGCTCTTACAACTACCTTGGATTTGCTGCCGCTGACGAGTACTGCACGCCCCGGGTGATCGAGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggtgaagcaagtttcagctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
attattgattcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatacatgtttatgcgtcactgtctgcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACCTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
-atacatg
- - - - - - - - - - tgtctgc
- - - - - - - - - - - - - - - - - - - - - - - - -tgaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacaca