Sequence
atgc intronic sequence ATGC exonic sequencegtgagcaacctctatactctgaatttgttccttactaaattgtttcctgattttaacaacttgttagttcttgccattagagtttctatcattatccagccttacacttgtttccctcaataatattcacggaattcaattgtgtttactgttcttttattctatttatgcagTTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGACAGCCCGATAGCTGATGGAAGCCTTCTTGATTTCTTGAGGCAAGTCTCTA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14940.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 9
gtgagcaacctctatactctgaatttgttccttactaaattgtttcctgattttaacaacttgttagttcttgccattagagtttctatcattatccagccttacacttgtttccctcaataatattcacggaattcaattgtgtttactgttcttttattctatttatgcagTTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGACAGCCCGATAGCTGATGGAAGCCTTCTTGATTTCTTGAGGCAAGTCTCTA
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-------------------------------------------------------------------------------gtacataggctaagatacaaa---aaacttgcttact---atgctatacgt----tttggttgtccttctggttgaaggtttcttcttttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGGTCTCTCTGTGCCTGTGGTGATAATTCTATTGCAGATGGCAGTCTTCTTGACTTTCTACGGCAAGTGTCCA
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 3'ss of exon 7
gtgagcaacctctatactctgaatttgttccttactaaattgtttcctgattttaacaacttgttagttcttgccattagagtttctatcattatccagccttacacttgtttccctcaataatattcacggaattcaattgtgtttactgttcttttattctatttatgcagTTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGACAGCCCGATAGCTGATGGAAGCCTTCTTGATTTCTTGAGGCAAGTCTCTA
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-------------------------------------------------------------------------gtatagaaattcccagcaaaaatcaa--------taatttccatgtataacatatgttcaa--cgattttttaacacatatttatcttctgttt---cagCTATTGGAGCCCTTGGAGCTATGCTACAGGTCGCTGTGCGCCTGTGGTGACCGTGCCATCGCTGATGGAAGCCTTCTTGATTTCTTGCGCCAAGTTTCCA
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
gtgagcaacctctatactctgaatttgttccttactaaattgtttcctgattttaacaacttgttagttcttgccattagagtttctatcattatccagccttacacttgtttccc--tcaataatattcacggaattcaattgtgtttactgttcttttattctatttatgcagTTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGACAGCCCGATAGCTGATGGAAGCCTTCTTGATTTCTTGAGGCAAGTCTCTA
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----------------------------------------------------------------------caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattc--tcgtctcgagtgagtcttttttctctt---gcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 7
gtgagcaacctctatactctgaatttgttccttactaaattgtttcctgattttaacaacttgttagttcttgccattagagtttctatcattatccagccttacacttgtttccctcaata-atattc----acggaattcaattgtgtttactgttctttta--ttctattta-tgcagTTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGACAGCCCGATAGCTGATGGAAGCCTTCTTGATTTCTTGAGGCAAGTCTCTA
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---------------------------------------------------------------------------------gatgttttcattatcagattttgcaatttgcatagatagtgtatattttagtactgatttttgtttttttttttaaatttttaatttttattttctgtagTTCCTAGAGCCTCTTGAACTCTGCTATAGATCACTCTGTGCTTGTGGTGACCGGCCTATTGCTGATGGAAGCCTTCTTGATTTTTTGCGGCAAGTTTCTAMapped 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|47828699|gb|CK118383.1|CK118383EST: ATGGAATCTCGGATATTCCTGAAGAAGCTACCTTCACTAATGTGGAACAG TTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGAC
genomic: ATGGAATCTCGGATATTCCTGAAGAAGCTACCTTCACTAATGTGGAACAGgtgagcaacc ... atttatgcagTTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataatattcacggaattcaattgtgtttactgttcttttattctatttatgcagTTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGACAGCCCGATAGCTGATGGAAGCCTTCTTGATTTCTTGAGGCAAGTCTCTA
ttcttttattctattt CT-rich tract
ttcttttattctattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcaacctctatactctgaatttgttccttactaaattgtttcctgattttaacaacttgttagttcttgccattagagtttctatcattatccagccttacacttgtttccctcaataatattcacggaattcaattgtgtttactgttcttttattctatttatgcagTTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGACAGCCCGATAGCTGATGGAAGCCTTCTTGATTTCTTGAGGCAAGTCTCTA
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