Sequence
atgc intronic sequence ATGC exonic sequencegtacgcacgggcacggcacgctagctgcggccggtgtgctagagtaacgtcgcatggaggatcgcgcgctcacgcggtggcgtgtttcggcgttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G067022_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g37470.3 (Oryza sativa), 3'ss of exon 1
gtacgcacgggcacggcacgctagctgcggccggtgtgctagagtaacgtcgcatggaggatcgcgcgctcacgcggtggcgtgtttcggc-gttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
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-----------------------------------------gtacgaccaaccacgaacgacctcgtcatgcctctcgctcacatttcgtttggaattttgcagGTGGCGCAGGTGCTCCTGACGCTGCCGTACTCCTTCTCGCAGCTCGGGATGCTCTCGGGCCTGCTGCTGCAGGTGTTCTACGGCCTCATGGGCAGCTGGA
upper sequence: GRMZM2G067022_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT5G01240.1 (Arabidopsis thaliana), 3'ss of exon 2
--------------------------------------------------------------------------gtacgcacgggcacggcacgctagctgcggccggtgtg--------ctagagtaacgtcgcatggaggatcgcgcgctcacgcggtggcgtgtttcg-----------gcgttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
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gtaagtacaatttcgataatgaataattcatctagtagtaatatttactataagaaaacaaatgtttctttattata-ataagaccaaattactcttttttcgtctgtcctaaagtttttttttaatattctttcataaaacattcttgaaataaataacaacttaagttataaaaacaaaaatatatggttgcagGTGGCACAAGTGCTGTTGACGCTGCCGTATTCGTTCTCGCAGTTGGGAATGTTATCAGGAATATTGCTTCAAATATTCTATGGGTTAATGGGATCTTGGA
upper sequence: GRMZM2G067022_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ21839 (Selaginella moellendorffii), 3'ss of exon 1
gtacgcacgggcacggcacgctagctgcggccggtgtgctagagtaacgtcgcatggaggatcgcgcgctcacgcggtggcgtgtttcggcgttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
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gtgaggacaaacagagttttgggacttttttttttcttcctcttcttcgttg--ttgtgcttgtgatcttcgcctcacggt-ttcttctgtggtgatttccagGTGGCTCAAGTGCTGCTCACGCTGCCATACTCCTTCTCGCAGCTGGGATTCGCGTCGGGCATTGTCTTCCAGATCTTCTATGGCCTGCTCGGGGCCTGGA
upper sequence: GRMZM2G067022_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ36050 (Selaginella moellendorffii), 3'ss of exon 1
-gtacgcacgg-gcacggcacgctagct-gcggccggtgtgctagagtaacgtcgcatggaggatcgcgcgctcacgcggtggcgtgtttcggcgttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
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tccactttcagtatagcgaacaccaaaaagaaacctttgttcttcttcttcctt-cgttgtttgtcg-gaacttacttgtttttctctttt----cttctccacagGTCGCACAGGTGCTTTTGACGCTGCCATACTCTTTCTCGCAGCTGGGCATTGTGTGGGGGGTCACCTTCCAAGTGTTTTACGGGCTTTTGGGCTCCTGGA
upper sequence: GRMZM2G067022_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ34222 (Selaginella moellendorffii), 3'ss of exon 1
---gtacgcacgggcacggcacgctagctgcggccggtgtgctagagtaacgtcgcatggaggatcgcgcgctcacgcggtggcgtgtttcggcgttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
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gacaaacacacagttttgggacttttttttttcttcttcctcttcttcgttgttgtgcttgtgatcttcgcctcac--ggt----ttcttctgtggtgatttccagGTGGCTCAAGTGCTGCTCACGCTGCCATACTCCTTCTCGCAGCTGGGATTCGCGTCGGGCATTGTCTTCCAGGTCTTCTATGGCCTGCTCGGGGCCTGGA
upper sequence: GRMZM2G067022_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ18760 (Selaginella moellendorffii), 3'ss of exon 1
gtacgcacgggcacggcacgctagctgcggccggtgtgctagagtaacgtcgcatggaggatcgcgcgctc--acgcggtggcgtgtttcggcgttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
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----gcttcgattcctc-cactttctgtcaaaaagaaaccttcgttcttcttcttccttcgttgtttgtcggaacttacttgtttttctcttttcttctccacagGTCGCACAGGTGCTTTTGACGCTGCCATACTCTTTCTCGCAGCTGGGCATTGTGTGGGGGGTCACCTTCCAAGTGTTTTACGGGCTTTTGGGCTCCTGGAMapped 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|71772740|gb|DR970666.1|DR970666EST: GGCACGGCGGCTCCGTCTGGGACGCCTGGTTCAGCTGCGCCTCCAACCAG GTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATG
genomic: GGCACGGCGGCTCCGTCTGGGACGCCTGGTTCAGCTGCGCCTCCAACCAGgtacgcacgg ... tcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcgcatggaggatcgcgcgctcacgcggtggcgtgtttcggcgttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
cgctcac putative branch site (score: 3)
ttcgtcc putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgcacgggcacggcacgctagctgcggccggtgtgctagagtaacgtcgcatggaggatcgcgcgctcacgcggtggcgtgtttcggcgttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA