Sequence
atgc intronic sequence ATGC exonic sequencegttagtaaagcagcgacaagtccaagagagcagttaaaacatgcttgtaatctgacgcatgtttcttaattagGTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGCTGACCGAGAGATCTGATGTATTCTCATTTGGTGTTGTTCTCTTGGAGCTTATTACTGGTAGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G355636_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g02040.1 (Oryza sativa), 3'ss of exon 5
gttagtaaagcagcgac-----------aagtccaagagagcagttaaaacatgcttgtaatctgacgcatgtttcttaattagGTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGCTGACCGAGAGATCTGATGTATTCTCATTTGGTGTTGTTCTCTTGGAGCTTATTACTGGTAGAAAG
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gtaagtaaattactgcctgccttactgagggcacaagagaacatcgtacattttcatatgatctaatgattatttgttatgcagTTATCTGGCTCCGGAGTATGCTTCGAGTGGCAAGTTGACTGAGAGATCTGATGTATTCTCTTTTGGCGTTGTTCTCTTAGAGCTTATTACCGGTAGAAAG
upper sequence: GRMZM2G355636_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT1G26150.1 (Arabidopsis thaliana), 3'ss of exon 5
------gttagtaaagcagcgacaagtccaagagagcagttaaaacatgcttgta----------atctgacgcatgtttcttaa------ttagGTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGCTGACCGAGAGATCTGATGTATTCTCATTTGGTGTTGTTCTCTTGGAGCTTATTACTGGTAGAAAG
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gtaggtgctggttaaggtcccatatgacattgctcatgagcaaaacttctttctgtatatgttccatcttataaacgattggtaaatgttttcagCTACATGGCTCCGGAATATGCATCAAGTGGCAAATTAACCGAGAAATCAGACGTATTCTCCTTTGGGGTTGTTCTACTGGAGTTAATCACTGGACGTAAG
upper sequence: GRMZM2G355636_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv01s0011g02460.t01 (Vitis vinifera), 3'ss of exon 5
--------gttagtaaagcagcgacaagtccaagagagcagttaaaacatgcttgtaatctgacg--catgtt------tcttaatt-----------agGTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGCTGACCGAGAGATCTGATGTATTCTCATTTGGTGTTGTTCTCTTGGAGCTTATTACTGGTAGAAAG
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cagagggcacttactatttagggatgaattgtccagaatgactaagatttgttttacatgccatatccatgttcaaagattccaattgattgaatttcagATATATGGCTCCCGAGTATGCATCAAGTGGCAAGTTAACTGAGAAATCTGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAAMapped 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|211250045|gb|FL413628.1|FL413628EST: GCTATGGATGCTTGCACTCATGTAACTACACGAGTGATGGGAACTTTTGG GTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGTTGACCGAGAGATCTGA
genomic: GCTATGGATGCTTGCACTCATGTAACTACACGAGTGATGGGAACTTTTGGgttagtaaag ... tcttaattagGTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGCTGACCGAGAGATCTGA
EST:
gi|78091057|gb|DV519431.1|DV519431EST: GCTATGGATGCTTGCACTCATGTAACTACACGAGTGATGGGAACTTTTGG GTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGCTGACCGAGAGATCTGA
genomic: GCTATGGATGCTTGCACTCATGTAACTACACGAGTGATGGGAACTTTTGGgttagtaaag ... tcttaattagGTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGCTGACCGAGAGATCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtccaagagagcagttaaaacatgcttgtaatctgacgcatgtttcttaattagGTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGCTGACCGAGAGATCTGATGTATTCTCATTTGGTGTTGTTCTCTTGGAGCTTATTACTGGTAGAAAG
atctgac putative branch site (score: 3)
tgtttctt putative PPT
atgtttcttaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaaagcagcgacaagtccaagagagcagttaaaacatgcttgtaatctgacgcatgtttcttaattagGTACCTTGCTCCGGAGTATGCCTCAAGTGGCAAGCTGACCGAGAGATCTGATGTATTCTCATTTGGTGTTGTTCTCTTGGAGCTTATTACTGGTAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT