Sequence
atgc intronic sequence ATGC exonic sequencegtaagtatcagggaaatcaaagaaaaaggagatatatcagtcttgggatttgcaaaatcatgaatagttgttgtgttgttggtttagGTTCCGCTTTGTTCTATCCCCACAGCCTACACCTGCAGCCTTGTATCTCATGAAACGTTGCACATGGGCTACACCTGAGGAAAGGGAGAAAATGGAACAT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G28700.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G28700.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os01g40620.2 (Oryza sativa), 3'ss of exon 7
gtaagtatcagggaaatcaaagaaaaaggagatatatcagtcttgggatttgcaaaatcatgaatagttgttgtgttgttggtttagGTTCCGCTTTGTTCTATCCCCACAGCCTACACCTGCAGCCTTGTATCTCATGAAACGTTGCACATGGGCTACACCTGAGGAAAGGGAGAAAATGGAACAT-------------------------
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-------------gtaggatttacaaattttatttttaagtggttaaccttatggag--atgtgtaattctaactttgtag---caggtttcgctttgttctatctccacagCCTACAGCCTCTTTACTTTTCCTTTCCAAGCGGTGCGGTTGGGCTAGTTCTGAGGAACTTGAGAAAGTTGAGCATATTGAAGTCTGCCCGAAAGCAATGG
upper sequence: AT3G28700.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os01g40620.1 (Oryza sativa), 3'ss of exon 7
gtaagtatcagggaaatcaaagaaaaaggagatatatcagtcttgggatttgcaaaatcatgaatagttgttgtgttgttggtttagGTTCCGCTTTGTTCTATCCCCACAGCCTACACCTGCAGCCTTGTATCTCATGAAACGTTGCACATGGGCTACACCTGAGGAAAGGGAGAAAATGGAACAT
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-------------gtaggatttacaaattttatttttaagtggttaaccttatggag--atgtgtaattctaactttgtag---cagGTTTCGCTTTGTTCTATCTCCACAGCCTACAGCCTCTTTACTTTTCCTTTCCAAGCGGTGCGGTTGGGCTAGTTCTGAGGAACTTGAGAAAGTTGAGCAT
upper sequence: AT3G28700.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv14s0066g02600.t01 (Vitis vinifera), 3'ss of exon 7
gtaagtatcagggaaatcaaagaaaaaggagatatat--------------cagtcttgggatttgcaaaatcatg------aatagttgttgtgttgt-------tggtttagGTTCCGCTTTGTTCTATCCCCACAGCCTACACCTGCAGCCTTGTATCTCATGAAACGTTGCACATGGGCTACACCTGAGGAAAGGGAGAAAATGGAACAT
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gtaagcttttgggactgcagtctgtcagaatttgtttgtttgttttttctttttttttttgctttagaaaattttactatttgataggttttttttttcacatatattggttagGTTTCGTTTTGTTCTATCTCCACAGTCTACACCTGCAAAACTCTATTTGATGGAACGTTGCAAGTGGGCTGGGGCTGAAGAAATAGCAAAGCTTGATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatatcagtcttgggatttgcaaaatcatgaatagttgttgtgttgttggtttagGTTCCGCTTTGTTCTATCCCCACAGCCTACACCTGCAGCCTTGTATCTCATGAAACGTTGCACATGGGCTACACCTGAGGAAAGGGAGAAAATGGAACAT
aaaatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtatcagggaaatcaaagaaaaaggagatatatcagtcttgggatttgcaaaatcatgaatagttgttgtgttgttggtttagGTTCCGCTTTGTTCTATCCCCACAGCCTACACCTGCAGCCTTGTATCTCATGAAACGTTGCACATGGGCTACACCTGAGGAAAGGGAGAAAATGGAACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA