Sequence
atgc intronic sequence ATGC exonic sequencegtaagtagaacttaactatgcacttctatttatggttatggttgtggtatgagaacctgctttggtaatttactataattcttatgttttctagCCATTGGAGCCGTCACACGCCCGAAGGGGCTGCTCTTGAAGCTGATTGGAATGCCAAATTTGCAGCTTATGAGAAGAAATATCCGGAGGAAGCTGCAGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G45290.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G033208_T01 (Zea mays), 3'ss of exon 5
gtaagtagaac-ttaactatgcacttctatttatggttatgg--ttgtggtatgagaacctgctttggtaatttactataattcttatgttttctagCCATTGGAGCCGTCACACGCCCGAAGGGGCTGCTCTTGAAGCTGATTGGAATGCCAAATTTGCAGCTTATGAGAAGAAATATCCGGAGGAAGCTGCAGAG
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gttggtctaccctttgttctagtaatctagttatctcaatgggtttgtcaaatgcatagcaatcata-taatttccttgaatggat---cattgcagTCACTGGAGCCGCCACACACCCGAAGGTGCTGCACTTGAGGCTGATTGGAACGCTAAGTTTGCAGAGTACGAGAAGAAGTATGCAGATGATGCAGCAACC
upper sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G38720.1 (Glycine max), 3'ss of exon 5
gtaagtagaacttaactatgcacttctatttatggttatggttgtggtatgagaacc-tgctttggtaatttactataattcttatgttttctagCCATTGGAGCCGTCACACGCCCGAAGGGGCTGCTCTTGAAGCTGATTGGAATGCCAAATTTGCAGCTTATGAGAAGAAATATCCGGAGGAAGCTGCAGAG
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gtatggatgggg-agttagagatatctgtgtttcctcttagtc-tgctgagattttcatgatcttgaatgtaacttt--ctttacttttccctagGCATTGGAGTCGCCATACCCCTGAGGGTGCTAAACTTGAAGCTGAGTGGAATGCCAAGTTTGCAGAATATGAGAAGAAATACAGTGAGGAAGCTGCAGAG
upper sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA03G03200.1 (Glycine max), 3'ss of exon 5
gtaagtagaacttaactatgcacttctatttatggttatggttgtggtatgagaacctgctttggtaatttactataatt-cttatgt-tttctagCCATTGGAGCCGTCACACGCCCGAAGGGGCTGCTCTTGAAGCTGATTGGAATGCCAAATTTGCAGCTTATGAGAAGAAATATCCGGAGGAAGCTGCAGAG
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gtatggatgatgggtttagagatttcttttt-----tcctgtgacactgctgaggtttataatgatactgaataagaattgcttgtctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAATGCTAAGTTTGCTGAGTATGAAAAGAAATACAAGGAGGAGGCTGCAGAA
upper sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv16s0022g01440.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtagaacttaactatgcacttctatttatggttatggttgtggtatgagaacctgctttggtaatttactataattcttatgttttctagCCATTGGAGCCGTCACACGCCCGAAGGGGCTGCTCTTGAAGCTGATTGGAATGCCAAATTTGCAGCTTATGAGAAGAAATATCCGGAGGAAGCTGCAGAG
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-------gtattgaaattgagaaggttgcttttgcttcatgtttcaaattaag------tttgaatcctttagtgagcttcttgtgtttcacagGCACTGGAGCCGCCACATCCCTGATGGAGCTGCCCTTGAAGCTGAATGGAATGCCAAGTTTGCAGAGTATGAGAAGAAATACAAAGAAGAAGCAGCAGAAMapped 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|116457540|gb|EG500132.1|EG500132EST: AATCTTGGGTGGCCATATGAGCCGTTCCATGTACCTGAGGATGTCAAAAG CCATTGGAGCCGTCACACACCCGAAGGGGCTGCTCTTGAAGCTGATTGGAA
genomic: AATCTTGGGTGGCCATATGAGCCGTTCCATGTACCTGAGGATGTCAAAAGgtaagtagaa ... tgttttctagCCATTGGAGCCGTCACACGCCCGAAGGGGCTGCTCTTGAAGCTGATTGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttgtggtatgagaacctgctttggtaatttactataattcttatgttttctagCCATTGGAGCCGTCACACGCCCGAAGGGGCTGCTCTTGAAGCTGATTGGAATGCCAAATTTGCAGCTTATGAGAAGAAATATCCGGAGGAAGCTGCAGAG
ttcttatgttttct CT-rich tract
taatttactataattc 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
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gtaagtagaacttaactatgcacttctatttatggttatggttgtggtatgagaacctgctttggtaatttactataattcttatgttttctagCCATTGGAGCCGTCACACGCCCGAAGGGGCTGCTCTTGAAGCTGATTGGAATGCCAAATTTGCAGCTTATGAGAAGAAATATCCGGAGGAAGCTGCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG