Sequence
atgc intronic sequence ATGC exonic sequence...aactgcggaaaaaaaacccaacgcgctctgatcatgtgcatattatatgtttgtagaatcattggccattgcttggatttttaactgtttaatgttacagGGAGATCAAGTGGCGCTTTTGTCTGCCTTTGCAGAAATGGGACTGAAGCTGCGGCTAGACATGCCAGATCAAGCAATGAGTGTGGCAGGTCTCTTCTTTC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G24810.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G24810.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA14G20110.1 (Glycine max), 3'ss of exon 9
aactgcggaaaaaaaacccaacgcgctctgatcatgtgcatattatatgtttgtagaatcatt--ggccattgcttggatttttaactgtttaatgttacagGGAGATCAAGTGGCGCTTTTGTCTGCCTTTGCAGAAATGGGACTGAAGCTGCGGCTAGACATGCCAGATCAAGCAATGAGTGTGGCAGGTCTCTTCTTTC
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-acagtttttataggattattagtattcatacaagtttcccttaattgctccaaatgatctttctaaacaatgactgagtatgtaagcctttt-tgttaaagGGGGACCATGTGGCCCTCCTGTCTGCCTTTGCAGAAATGGGGCTTAAGTTGCGTCTGGACATACCAGAGCAGGCAATGGAAGTAACAGCTGTATTTTTTC
upper sequence: AT5G24810.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA17G24420.1 (Glycine max), 3'ss of exon 8
aactgcggaaaaaaaacccaacgcgctctgatcatgtgcatattatatgttt---gtagaatcattggccattgcttggatttttaactgtttaatgttacagGGAGATCAAGTGGCGCTTTTGTCTGCCTTTGCAGAAATGGGACTGAAGCTGCGGCTAGACATGCCAGATCAAGCAATGAGTGTGGCAGGTCTCTTCTTTC
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-acagtttttataggattgttagtatt-tgcacaagttttccttaattgctccaaatgatctttctaaacaatgactgagtatgtaaacctttt-tgttaaagGGGGACCATGTGGCCCTTCTGTCCGCCTTTGCAGAAATGGGGCTTAAGTTGCGTCTGGACATACCAGAGCAGGCAATGGAAGTAACAACCGTATTCTTTC
upper sequence: AT5G24810.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv04s0008g02740.t01 (Vitis vinifera), 3'ss of exon 8
aactgcggaaaaaaaacccaacgcgctctgatcatgtgcatattatatgtttgtaga-atcattggccattgcttg--gatttttaactgtttaatgttacagGGAGATCAAGTGGCGCTTTTGTCTGCCTTTGCAGAAATGGGACTGAAGCTGCGGCTAGACATGCCAGATCAAGCAATGAGTGTGGCAGGTCTCTTCTTTC
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--ttgccaaaccaatggcttgc-tgctatcatttttggtttgaagtttgcttcaaatcgttctttgtgaatgatgaaagaattttcactgcttattgttacagGGGGATCATGTGGCTCTTTTGTCTGCCTTATCAGAAATGGGACTTAGGTTGCGCCTTGACCTGCCAGATCAGGCGATGGAAGTAGCAACTGTATTTTTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgtttgtagaatcattggccattgcttggatttttaactgtttaatgttacagGGAGATCAAGTGGCGCTTTTGTCTGCCTTTGCAGAAATGGGACTGAAGCTGCGGCTAGACATGCCAGATCAAGCAATGAGTGTGGCAGGTCTCTTCTTTC
atttttaactgtttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactgcggaaaaaaaacccaacgcgctctgatcatgtgcatattatatgtttgtagaatcattggccattgcttggatttttaactgtttaatgttacagGGAGATCAAGTGGCGCTTTTGTCTGCCTTTGCAGAAATGGGACTGAAGCTGCGGCTAGACATGCCAGATCAAGCAATGAGTGTGGCAGGTCTCTTCTTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - aaaaaac
- - - - - - - - -ccaacgc
- - - - - - - - - - - - - -ctgatca
- - - - - - - - - - - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - agaatca