Sequence
atgc intronic sequence ATGC exonic sequence...gatacatgtttatgcgtcactgtcttcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACTTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G067257_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 3
--gatacatgtttatgcgtcactgtcttcttagttcacatttttgtcttggtgaa-----gcaagtttcagctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACTTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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catatagatgattatg-ataaaaatatatgatccaaaaataaatgaaatgaaaaacacgcacaagtttcaactgttgtttaaactccaaat------attgtttcagGCGTACTTCAAATACCACAAGATGCCTCAACCTAGGATCCTACAATTACCTTGGATTTGCAGCAGCAGATGAGTACTGCACTCCACTTGTGATCGAGTCT
upper sequence: GRMZM2G067257_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G07250.1 (Glycine max), 3'ss of exon 3
----gatacatgtttatgcgtcactgtcttcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattattgattcatt-gttgcagGCGTACCTCGAATACCACCAGATGCCTCAACTTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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ttgaaatatatatatatttgttgtaaattt--taatttagagcttcagc---atgagaaatatatctgatgcctatttttcatactatttctcctcccaatgcagACGGACTGATAAAATAAGTAGATGCCTTAATTTGGGATCATACAACTATCTTGGTTTTGCGGCAGCAGATGAATACTGCACGCCTCGAGTAGTTGATACG
upper sequence: GRMZM2G067257_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 3
gatacatgtttatgcgtcactgtctt-cttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattattgattcat-tgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACTTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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--tgtggattgaattattattattttatttaattttaagttagagctttagcatgagatatttatccgatgcctatttttcatactatttctcctaatgcagACGGACTGATAAAATAAGTAGATGCCTTAATTTGGGATCATACAACTATCTTGGTTTTGCGGCAGCAGATGAATACTGCACACCTAGAGTAGTTGATACG
upper sequence: GRMZM2G067257_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 3'ss of exon 3
---gatacatgtttatgcgtcactgtcttcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacatta-ttgattcattgt-tgcagGCGTACCTCGAATACCACCAGATGCCTCAACTTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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tatggtgcaca---atgatttatggttgccctgatttacattct--ccagtgtaagctaaaactcataaatttttagtatctatcaactaatcgatttcatgcagACGAACTAGCAATATCAGTCGATGCCTTAACTTGGGATCATACAACTACCTTGGCTTTGCTGCATCGGATGAATACTGCACGCCACGTGTAATTGAATCA
upper sequence: GRMZM2G067257_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv17s0000g00500.t01 (Vitis vinifera), 3'ss of exon 3
--gatacatgtttatgcgtcactgtcttcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattatt-gattcattgt--tgcagGCGTACCTCGAATACCACCAGATGCCTCAACTTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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ttaataaa-gtttttgtatggttg-cttgttgggagtctcttggattttgac---tcaacctgaaatatttggtggatcaattgatttggttcaatctcatgcagACGAACCACAAAGATAAGTAAGTGTCTTAACTTGGGGTCATACAATTACCTTGGATTTGCCGCATCAGATGAATTCTGCACACCACGTGTAATCGAGTCT
upper sequence: GRMZM2G067257_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ20689 (Selaginella moellendorffii), 3'ss of exon 3
gatacatgtttatgcgtcactgtcttcttagttcacatttttgt-cttggtgaagcaagtttc----agctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACTTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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-gtaggtgataactttttg-tgt-ttggtacttagaattctcgtgcttttggaagtttcttttcgggagct-tccctgatccttggattttattttttttgatagTCGGCCCTTCAAGACACGGAGATGTCTCAACCTTGGCTCTTACAACTACCTTGGATTTGCTGCCGCTGACGAGTACTGCACGCCCCGGGTGATCGAGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggtgaagcaagtttcagctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACTTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatacatgtttatgcgtcactgtcttcttagttcacatttttgtcttggtgaagcaagtttcagctgttgctaacacacattattgattcattgttgcagGCGTACCTCGAATACCACCAGATGCCTCAACTTGGGCTCCTACAACTACCTTGGCTTTGCTGCAGCAGATGAATACTGCACACCACGTGTTATTGAGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
-atacatg
- - - - - - - - - - - - - - - - - - - - - - - - -tgaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacaca