Sequence
atgc intronic sequence ATGC exonic sequencegtatgtcaatgctacactaaaatttcccctttttgcttaccattgtttcaatgtggtcagtaaacgatgaaggcagtttcactaggtgctgacctatctaattatatatttcagAACATCGGCTGATTTGTTTAAAACCGTGTTTGACCTCCTCGTGTCAGTGACAGTATTTCTTGGCCGCTTTGACATGCGGATGCTGCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G11800.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 5
gtatgtcaatgc-tacactaaaatttcccctttttgcttaccattgtttcaatgtggtcagtaaacgatgaaggcagtttcactaggtgctgacctatctaattatatatttcagAACATCGGCTGATTTGTTTAAAACCGTGTTTGACCTCCTCGTGTCAGTGACAGTATTTCTTGGCCGCTTTGACATGCGGATGCTGCAG
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gtatgtatgcatataaaatattttgtttcctagtttttttttaaaattttatt----tcaaggggtgttgaaggttgtcttga-atgtgtggttacactta-ctaaataatgcagAACATCTGCTGATTTATTCAAAACAGTTTTTGACCTCCTGGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG
upper sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 5
gtatgtcaatgc-tacactaaa-atttcccctttttgcttaccattgtttcaatgtggtcagtaaacgatgaaggcagt-ttcactaggtgctgacctatctaattatatatttcagAACATCGGCTGATTTGTTTAAAACCGTGTTTGACCTCCTCGTGTCAGTGACAGTATTTCTTGGCCGCTTTGACATGCGGATGCTGCAG
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gtatgtatgtatgtatataaagtattttgtttcccagtttttttttttttaatttttttcaaggggtgttgaaggttgtcttgaatatgtggttaca---cttgctaaataatgcagAACATCTGCTGATTTATTCAAAACGGTTTTTGACCTCCTAGTATCAGTGACTGTCTTCGTTGGGCGTTTTGACATGCGTATGATGCAG
upper sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 6
--gtatgt-caatgcta--cactaaaatttcccctttttgcttaccattgtttcaatgtggtcagtaaacgatgaaggca-gtttcactag------gtgctgacctatctaat-tatatatttcagAACATCGGCTGATTTGTTTAAAACCGTGTTTGACCTCCTCGTGTCAGTGACAGTATTTCTTGGCCGCTTTGACATGCGGATGCTGCAG
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gtatatgttcaatattcgtcatttatttagttattcctttttttttatgaagaggagggggttagttggaaagaaaatctcagttaactagttaactgtcctcactttgccgatgcttgtgttgcagAACATCAGCTGATCTTTTTAAGACAGCTTTTGACCTCCTGGTATCAGTAACTGTGTTTGTTGGTCGCTTTGACATGCGCATGATGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaacgatgaaggcagtttcactaggtgctgacctatctaattatatatttcagAACATCGGCTGATTTGTTTAAAACCGTGTTTGACCTCCTCGTGTCAGTGACAGTATTTCTTGGCCGCTTTGACATGCGGATGCTGCAG
tatctaattatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtcaatgctacactaaaatttcccctttttgcttaccattgtttcaatgtggtcagtaaacgatgaaggcagtttcactaggtgctgacctatctaattatatatttcagAACATCGGCTGATTTGTTTAAAACCGTGTTTGACCTCCTCGTGTCAGTGACAGTATTTCTTGGCCGCTTTGACATGCGGATGCTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG