Sequence
atgc intronic sequence ATGC exonic sequence...atcatgccataagcaaatgcatgctactctacatgaagttttgctagcccacttcactagtttacgtcatgtattgattttcttttatattttttctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAATGTGATGGAATTTCTAATTCTTGCTGGCGATCACCTGTACCGGATGGACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g25734.2 (Oryza sativa), 3'ss of exon 2
atcatgccataagcaaatgcatgctactctacatgaa-gttttgctagcccacttcactagtttacgtcatgtattgattttcttttatattttt-tctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAATGTGATGGAATTTCTAATTCTTGCTGGCGATCACCTGTACCGGATGGACT
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-caacacttgtcgtttcagttagttactgaagatggctgtgtttgtaggatcccaatctatcttata-caagtactgattttgttttatattctgacctcagGGTACTGCAGATGCTGTAAGACAGTACTTATGGCTATTTGAGGAGCATAATGTTATGGAGTTTCTAATTCTGGCTGGAGATCACCTTTACCGCATGGACT
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 2
atcatgccataagcaaatgcatgcta---ctctacatgaagttttgctagcccacttcactagtttacgtcatgtattgattttcttttatattttttctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAATGTGATGGAATTTCTAATTCTTGCTGGCGATCACCTGTACCGGATGGACT
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gtaatgccagcactgccttgactctaaattttggtaccttgcgatgataactgttgttgtcccttgatttgatgttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 2
atcatgccataagcaaatgcatgctactctacatgaagttttgctagcccacttcactagtttacgtcatgtattgattttcttttatatt-------------ttttctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAATGTGATGGAATTTCTAATTCTTGCTGGCGATCACCTGTACCGGATGGACT
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-----gtaatgaccacat-tgccttgtttgactctaaattttgatacctcgcgatgatgacttttcttgtcccttgattttattttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATTMapped 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|149015028|gb|EE044774.2|EE044774EST: TTGAAGTCTTAGCTGCACAGCAGAGCCCAGATAATCCAAACTGGTTTCAG GGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAAT
genomic: TTGAAGTCTTAGCTGCACAGCAGAGCCCAGATAATCCAAACTGGTTTCAGgtatccctac ... tttttctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAAT
EST:
gi|67037455|gb|CO464271.1|CO464271EST: TTGAAGTCTTAGCTGCACAGCAGAGCCCAGATAATCCAAACTGGTTTCAG GGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAAT
genomic: TTGAAGTCTTAGCTGCACAGCAGAGCCCAGATAATCCAAACTGGTTTCAGgtatccctac ... tttttctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcccacttcactagtttacgtcatgtattgattttcttttatattttttctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAATGTGATGGAATTTCTAATTCTTGCTGGCGATCACCTGTACCGGATGGACT
tattgat putative branch site (score: 3)
ttttcttttatatttt CT-rich tract
tcatgtattgattttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcatgccataagcaaatgcatgctactctacatgaagttttgctagcccacttcactagtttacgtcatgtattgattttcttttatattttttctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAATGTGATGGAATTTCTAATTCTTGCTGGCGATCACCTGTACCGGATGGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA