Sequence
atgc intronic sequence ATGC exonic sequence...ttttcccccaaaagtcatacaactcccacctctgtattatcttttttcactttgtcctttttgattgaggaatgctgacatttccccgcaaaaaatacagAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAGATATTGTAAAGTCAAGGCTCAAACAATTTTCTAGGATGAATAGATTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G311220_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g61590.1 (Oryza sativa), 3'ss of exon 3
--ttttcccccaaaagtcatacaactcccacctctgtattatcttttttcactttgtcctttttgattgaggaatgctgacatttccccgcaaaaaatacagAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAGATATTGTAAAGTCAAGGCTCAAACAATTTTCTAGGATGAATAGATTCAA
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aaggtcactacttacattaattagtataaataact-tgttaacttttgttatttt-cctttttttcttggggaatcttgatatcctttcttttttaccacagAACATCCATGGCTTCAAAATGCTAAGAAAGCTCCAAATGTTCCTCTTGGAGATATTGTGAAGTCAAGGCTCAAACAATTTTCTAGAATGAATAGATTCAA
upper sequence: GRMZM2G311220_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G43160.1 (Glycine max), 3'ss of exon 5
ttttcccccaaaagtcatacaactcccacctctgta-ttat--------cttttttcactttgtcct-ttttgattgaggaatgctgacatttccccgcaaaaaatacagAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAGATATTGTAAAGTCAAGGCTCAAACAATTTTCTAGGATGAATAGATTCAA-
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-------aaaaaaaagatataaacattattgttgtagttatgttgatgacttgtcatagcacatcttgttttaattcaaggttcatcttgttttcttgt----attccagaGCATCCCTGGATTCAAAATGCTAAGAAGGCTCCTAATGTTCCACTTGGAGATGTTGTCAAGTCAAGGCTTAAGCAATTTTCAATGATGAACAGATTCAAA
upper sequence: GRMZM2G311220_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G18310.1 (Glycine max), 3'ss of exon 3
ttttcccccaaaagtcatacaactcccacctctgta-ttat--------cttttttcactttgtcct-ttttgattgaggaatgctgacatttccccgcaaaaaatacagAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAGATATTGTAAAGTCAAGGCTCAAACAATTTTCTAGGATGAATAGATTCAA
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--------aaaaatatatataaacattattgttgtagttatgttgatgacttgtctgagcacatcttgttttaattcatggttcatcttgttttttcttgtat--tgcagAGCATCCCTGGCTCCAAAATGCTAAGAAGGCTCCTAATGTTCCACTTGGAGATGTTGTCAAGTCAAGGCTTAAGCAATTTTCGATGATGAACAGATTCAA
upper sequence: GRMZM2G311220_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT3G51850.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------ttttcccccaaaagtcatacaactcccacctctgtattatcttttttcactttgtcctttttgattgaggaatgct----gacatttc-------------cccgcaaaaaatac---------------agAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAGATATTGTAAAGTCAAGGCTCAAACAATTTTCTAGGATGAATAGATTCAA
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gtacatagaagctacctttgccttatgctctttctctctgcatctgt-tattatctcttttcccaattacttcactgatctggagatactccaaaagattttttttatgcttattcctgcttttgttattgtttctcatttgctagAGCACCCATGGATTCAGAACGCAAAGAAAGCTCCCAATGTTCCTCTTGGAGATGTTGTGAAGTCGAGGTTGAAGCAATTTTCAGTGATGAACCGATTCAA
upper sequence: GRMZM2G311220_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv08s0105g00390.t01 (Vitis vinifera), 3'ss of exon 3
--ttttcccccaaaagtcatacaactcccacctctgtattatcttttttcactt--tgtcctttttgattgaggaatgctgacatttccccgcaaaaaatacagAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAGATATTGTAAAGTCAAGGCTCAAACAATTTTCTAGGATGAATAGATTCAA
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gattttatgcatgatgtttagtagttgaaa----tatattaaaattgcatgatggatgccaaattatgttttgttcaatttatactttttctctctgcttgcagAGCATTCTTGGCTCCAGAATGCTAAAAAAGCTCCAAATGTTCCTCTTGGAGATGTTGTCAAGGCAAGGCTTAAGCAGTTTTCAATGATGAACAGATTCAAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|213178497|gb|FM182856.1|FM182856EST: CATGTTGGAGCCTGATCCAAAGCTCAGGCTAACTGCAAAGCAGGTTCTTG AACATCATTGGCTTCAAAATGCGAAGAAGGCTCCTAATGTCCCTCTTGGAG
genomic: CATGTTGGAGCCTGATCCAAAGCTCAGGCTAACTGCAAAGCAGGTTCTTGgtatgtcatc ... aaaaatacagAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAG
EST:
gi|78119680|gb|DV538064.1|DV538064EST: CATGTTGGAGCCTGATCCAAAGCTCAGGCTAACTGCAAAGCAGGTTCTTG AACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAG
genomic: CATGTTGGAGCCTGATCCAAAGCTCAGGCTAACTGCAAAGCAGGTTCTTGgtatgtcatc ... aaaaatacagAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcactttgtcctttttgattgaggaatgctgacatttccccgcaaaaaatacagAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAGATATTGTAAAGTCAAGGCTCAAACAATTTTCTAGGATGAATAGATTCAA
tgctgac putative branch site (score: 2)
aaaaaataca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcccccaaaagtcatacaactcccacctctgtattatcttttttcactttgtcctttttgattgaggaatgctgacatttccccgcaaaaaatacagAACATCATTGGCTTCAAAATGCAAAGAAGGCTCCTAATGTCCCTCTTGGAGATATTGTAAAGTCAAGGCTCAAACAATTTTCTAGGATGAATAGATTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG