Sequence
atgc intronic sequence ATGC exonic sequence...ctgttttttgattgcctctttttctatgctatgcagttatgtctatgctctgtgtttgccttgataggaacactgatttttttcttcttctgatacacagAATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCCGGCAATGTGAAGATTGGGGATTTCAGTGTTAGCCAGGTTTTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G057084_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g50330.1 (Oryza sativa), 3'ss of exon 7
ctgtt-ttttgattgcctctttttctatgctatgcagttatgtctatgctctgtgtttgcc--ttgataggaacactgatttttttcttcttctgatacacagAATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCCGGCAATGTGAAGATTGGGGATTTCAGTGTTAGCCAGGTTTTTGAG
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--gttgctctagtcacacatttatctacgttatgcagtctgcactgtgttatgtgcttcctaactcatcatgtcactgaatgcttcctgtcatt-atacgcagAATATTATTCATGGTGATATCAAACCAGACAATTTGTTGGTCACAAGCACTGGCAGTGTGAAGATAGGGGATTTCAGTGTTAGTCAGATTTTTGAG
upper sequence: GRMZM2G057084_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT3G45240.3 (Arabidopsis thaliana), 3'ss of exon 8
ctgttttttgattgcctctttttctatgctatgcagttatgtctatgctctgtgtttgccttgataggaacac-tgatttttttcttcttct---gat-acacagAATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCCGGCAATGTGAAGATTGGGGATTTCAGTGTTAGCCAGGTTTTTGAG
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---------gtatgctctgcattatataatacttcatcat--ccacactgaaagtttatat-gatagatactcatgattttctctttgtcttttggatgaaacagAATGTAATTCATGGTGACATCAAACCTGACAATTTACTGGTTACTAGTACCGGGAGAGTGAAAATAGGAGATTTCAGTGTCAGCCAA---------
upper sequence: GRMZM2G057084_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT3G45240.2 (Arabidopsis thaliana), 3'ss of exon 8
ctgttttttgattgcctctttttctatgctatgcagttatgtctatgctctgtgtttgccttgataggaacac-tgatttttttcttcttct---gat-acacagAATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCCGGCAATGTGAAGATTGGGGATTTCAGTGTTAGCCAGGTTTTTGAG
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---------gtatgctctgcattatataatacttcatcat--ccacactgaaagtttatat-gatagatactcatgattttctctttgtcttttggatgaaacagAATGTAATTCATGGTGACATCAAACCTGACAATTTACTGGTTACTAGTACCGGGAGAGTGAAAATAGGAGATTTCAGTGTCAGCCAAGTATTCAAAMapped 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|60349018|gb|DN215991.1|DN215991EST: GAAATTATTTGCGAGACATAATATCTGGTCTTATGTATCTTCACTCTCAT AATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCC
genomic: GAAATTATTTGCGAGACATAATATCTGGTCTTATGTATCTTCACTCTCATgtaagctctc ... tgatacacagAATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCC
EST:
gi|76015161|gb|DT942331.1|DT942331EST: GAAATTATTTGCGAGACATAATATCTGGTCTTATGTATCTTCACTCTCAT AATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCC
genomic: GAAATTATTTGCGAGACATAATATCTGGTCTTATGTATCTTCACTCTCATgtaagctctc ... tgatacacagAATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctctgtgtttgccttgataggaacactgatttttttcttcttctgatacacagAATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCCGGCAATGTGAAGATTGGGGATTTCAGTGTTAGCCAGGTTTTTGAG
ttctgat putative branch site (score: 3)
cactgatttttttctt CT-rich tract
atttttttcttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgttttttgattgcctctttttctatgctatgcagttatgtctatgctctgtgtttgccttgataggaacactgatttttttcttcttctgatacacagAATGTTATTCATGGTGATATCAAACCAGACAATCTCTTGGTTACCAGTGCCGGCAATGTGAAGATTGGGGATTTCAGTGTTAGCCAGGTTTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA