Sequence
atgc intronic sequence ATGC exonic sequenceCCTTGGCAGCTGGACCGCGTACCTCATCAGCGTCCTCTACGTCGAGTACCGCTCCCGCAAGGAGAAGGAGGGCGTCAGCTTCAAGAACCACGTCATCCAGgtatggctctcgtcgtcgtcgtcgtcgtccgtccccgctccactttctcctccccgccataccatgtgtaatactccaactgactacagtttcgtccctt...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G127949_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g63770.1 (Oryza sativa), 5'ss of exon 3
CCTTGGCAGCTGGACCGCGTACCTCATCAGCGTCCTCTACGTCGAGTACCGCTCCCGCAAGGAGAAGGAGGGCGTCAGCTTCAAGAACCACGTCATCCAGgtat--ggctctcgtcgtcgt--cgtcgtcgtccgtccccgctccactttctcctccccgccataccatgtgtaatactccaactgactacagtttcgtccctt--
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CATGGGCAGCTGGACCGCCTACCTAATCAGCGTCCTCTACGTCGAGTACCGCTCCCGCAAGGAGAAGGAAGGCGTCAGCTTCAAGAACCACGTCATCCAGgtacccgccccgccttgtcatgccatggccgtgc-tggccttgtcgcttcttcgtatcctcctcctcatcagtaa-----cggattgttacagcttcttatccccg
upper sequence: GRMZM2G127949_T03 (Zea mays), 5'ss of exon 3
lower sequence: PP1S90_46V6.1 (Physcomitrella patens), 5'ss of exon 2
CCTTGGCAGCTGGACCGCGTACCTCATCAGCGTCCTCTACGTCGAGTACCGCTCCCGCAAGGAGAAGGAGGGCGTCAGCTTCAAGAACCACGTCATCCAGgtatggctctcgtcgtcgtcgtcgtcgtccgtccccgctccactttctcctccccgccataccatgtgtaatactccaactgactacagtttcgtccctt---------------------
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AATCGGCTGCTGGTCTTGTTACATGATTACCTGGCTCTACGTCGAGTATCGGACGCGGAAAGAGAGGGAGGGGGTCATCTTCAAGAACCACGTCATTCAGgtcctttgaagcaaatagcaaatgaaacttgtagttgcgtcaattt-tcgcccgtcctgtccaataagt-----tctgttgatttgtaaccttgtttcttgctgaatatggcgatggacag
upper sequence: GRMZM2G127949_T03 (Zea mays), 5'ss of exon 3
lower sequence: EFJ21839 (Selaginella moellendorffii), 5'ss of exon 2
CCTTGGCAGCTGGACCGCGTACCTCATCAGCGTCCTCTACGTCGAGTACCGCTCCCGCAAGGAGAAGGAGGGCGTCAGCTTCAAGAACCACGTCATCCAGgtatggctctcgtcgtcgtcgtcgtcgtccgtccccgctccactttctcctccccgccataccatgtgtaatactccaactgactacagtttcgtccctt----
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GCTCGGGGCCTGGACCGCCTATCTCATCAGTTGGCTCTACGTCGAGTACCGCAATCGCAAGGAGAAGGAGAATGTGAGCTTCAAGAACCACATCATCCAGgtaagaagcaagaagcaaagatcg--atctttctccat----cttttccatcttttccatctttggtgttcttgagtcgcgagcgatggtttctcttgttgcag
upper sequence: GRMZM2G127949_T03 (Zea mays), 5'ss of exon 3
lower sequence: EFJ34222 (Selaginella moellendorffii), 5'ss of exon 2
CCTTGGCAGCTGGACCGCGTACCTCATCAGCGTCCTCTACGTCGAGTACCGCTCCCGCAAGGAGAAGGAGGGCGTCAGCTTCAAGAACCACGTCATCCAGgtatggctctcgtcgtcgtcgtcgtcgtccgtcc--ccgctccactttctcctccccgccataccatgtgtaatactccaactgactacagtttcgtccctt
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GCTCGGGGCCTGGACCGCCTATCTCATCAGCTGGCTCTACGTCGAGTACCGCAATCGCAAGGAGAAGGAGAATGTGAGCTTCAAGAACCACATCATCCAGgtaagaagcaagaagcaaagatcgatctttctccatcttttccaatctttggtgttc-ttgagtcgcgagcgatggtttctcttgttgcag-----------Mapped 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|71442197|gb|DR823247.1|DR823247EST: CCCGCAAGGAGAAGGAGGGCGTCAGCTTCAAGAACCACGTCATCCAG CGAGATCATGCACGCGATGTGGAAGCCCGCCAAGTTCAAATACATCTACCT
genomic: CCCGCAAGGAGAAGGAGGGCGTCAGCTTCAAGAACCACGTCATCCAGgtatggctct ... tgtttggcagCGAGATCATGCACGCGATGTGGAAGCCCGCCAAGTTCAAATACATCTACCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTTGGCAGCTGGACCGCGTACCTCATCAGCGTCCTCTACGTCGAGTACCGCTCCCGCAAGGAGAAGGAGGGCGTCAGCTTCAAGAACCACGTCATCCAGgtatggctctcgtcgtcgtcgtcgtcgtccgtccccgctccactttctcctccccgccataccatgtgtaatactccaactgactacagtttcgtccctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC