Sequence
atgc intronic sequence ATGC exonic sequence...ttttgcgtctgttagataggttctgactttatctagtgtagggtgatactttaaagctacaaactcatcgagtgactgatgttgatgacaacgtttctagGTGTTCGGGGTGCTATGTGAAGCTCAATATTTCCAGAATGTCATGCGTGTTGGTTACCGACTGAGATCTGCTCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G34660.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G34660.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 9
ttttgcgtctgttagataggttc-tgactttatctagtgtagggtgata--ctttaaagctacaaactcatcgagtgactgatgttgatgacaacgtttctagGTGTTCGGGGTGCTATGTGAAGCTCAATATTTCCAGAATGTCATGCGTGTTGGTTACCGACTGAGATCTGCTCTG
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-tttttgtaaattaggctgcttgatggaattacatgcaagtaatttataacctttgcaagttttgacttattaagagcctatc--tgaatttgtttttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG
upper sequence: AT2G34660.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA15G09900.1 (Glycine max), 3'ss of exon 9
------ttttgcgtctgttagataggttctgactt-tatctagtgtagggtgatactttaaagctacaaactcatcgagtgactgatgttgatgacaacgtttctagGTGTTCGGGGTGCTATGTGAAGCTCAATATTTCCAGAATGTCATGCGTGTTGGTTACCGACTGAGATCTGCTCTG
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tacaagtttttaataaacaataaagatttttttttgtttgtaaattaggctgat-ctctatggtcacttattaagagcctatctgaatttgt------ctttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG
upper sequence: AT2G34660.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 9
-----ttttgcgtctgtta--gataggttctgactttatctagtgtagggtgatactttaaagctacaaactcatcgagtgactgatgttgatgacaacgtttctagGTGTTCGGGGTGCTATGTGAAGCTCAATATTTCCAGAATGTCATGCGTGTTGGTTACCGACTGAGATCTGCTCTG
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gctcttgatattactgttatgggcatgctctcattcta-ctggatctttgtaacacaattggaagaagaactccac-----actgat-tggtttaaactttctccagGTATTCGGGGTATTATTTGAAGCTCAGTATTTTCAGAATGTCATGCGTGTGGGTTTCCGGGTTAGATCAACTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactttaaagctacaaactcatcgagtgactgatgttgatgacaacgtttctagGTGTTCGGGGTGCTATGTGAAGCTCAATATTTCCAGAATGTCATGCGTGTTGGTTACCGACTGAGATCTGCTCTG
cgtttct CT-rich tract
ttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgcgtctgttagataggttctgactttatctagtgtagggtgatactttaaagctacaaactcatcgagtgactgatgttgatgacaacgtttctagGTGTTCGGGGTGCTATGTGAAGCTCAATATTTCCAGAATGTCATGCGTGTTGGTTACCGACTGAGATCTGCTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC