Sequence
atgc intronic sequence ATGC exonic sequence...ggtaatgttgtgctacatacacgccttgtatatttcttgagtcgaggctactatccccatctctatacttgtctgatgtacatagtgtttgtacgtgcagGAGTGTATGTTCTGATGTCAGGTCTGGATTTGGAGAGACTTGTTTTAGCAGCTGGGCCCTTAGGGATCATGCAGGCATGCCTCGACAATGTTCTTCCCTA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G45300.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G45300.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA11G15900.1 (Glycine max), 3'ss of exon 10
ggtaatgttgtgctacatacacgccttgtatatttcttgagtcgaggctactatccc--catctctatacttgtctgatgt-acatagtgtttgtacgtgcagGAGTGTATGTTCTGATGTCAGGTCTGGATTTGGAGAGACTTGTTTTAGCAGCTGGGCCCTTAGGGATCATGCAGGCATGCCTCGACAATGTTCTTCCCTA
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-ctttctcttttttcaatgcaaatcctgattaaaagggaagaacatttagttattgttgcatgtcaagtgtcattcattatcacttattctttggt--ttcagGAGTCTATGTCATGATGTCTGGGCTGGATCTGGAGAGACTTGTTTTGGCAGCTGGTCCTCTTGGTATTATGCAGGCATGTCTTGATGTCGTCCTTCCTTA
upper sequence: AT3G45300.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 10
-ggtaatgttgtgctacatacacgc-cttgtatatttcttgagtcgaggctactatccccatctctatacttgtctgatgtacatagtgtttgtacgtgcagGAGTGTATGTTCTGATGTCAGGTCTGGATTTGGAGAGACTTGTTTTAGCAGCTGGGCCCTTAGGGATCATGCAGGCATGCCTCGACAATGTTCTTCCCTA
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tcctttctcttttttccatgcaaatactgataaagagaaggacattttgttattgttgc-atgtcaagtgtcatttattaccacttattcttttgttt-cagGAGTCTATGTCATGATGTCTGGGCTGGATCTGGAGAGACTTGTTTTGGCAGCTGGTCCTCTTGGTATTATGCAGGCATGTCTTGATGTTGTCCTTCCTTA
upper sequence: AT3G45300.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv06s0004g03140.t01 (Vitis vinifera), 3'ss of exon 10
-ggtaatgttgtgctacatacacgccttgtatatttcttgagtcgaggctactatccccatctctatacttgt-ctgatgtacatagtgtttgtacgtgcagGAGTGTATGTTCTGATGTCAGGTCTGGATTTGGAGAGACTTGTTTTAGCAGCTGGGCCCTTAGGGATCATGCAGGCATGCCTCGACAATGTTCTTCCCTA
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tgagcatttatcacagcttatatga-ttgtaatttattataaatgaacttcttttcttttttcttcttctaatattgacat-tgttgtcctttttctttcagGAGTTTACGTAATGATGTCAGGGCTAGATTTGGAAAGGCTTGTTTTGGCAGCTGGGCCCCTTGGTCTTATGCAGGCATGTATAGATGTAGTTCTTCCCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggctactatccccatctctatacttgtctgatgtacatagtgtttgtacgtgcagGAGTGTATGTTCTGATGTCAGGTCTGGATTTGGAGAGACTTGTTTTAGCAGCTGGGCCCTTAGGGATCATGCAGGCATGCCTCGACAATGTTCTTCCCTA
gtctgat putative branch site (score: 4)
tatactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtaatgttgtgctacatacacgccttgtatatttcttgagtcgaggctactatccccatctctatacttgtctgatgtacatagtgtttgtacgtgcagGAGTGTATGTTCTGATGTCAGGTCTGGATTTGGAGAGACTTGTTTTAGCAGCTGGGCCCTTAGGGATCATGCAGGCATGCCTCGACAATGTTCTTCCCTA
- - - - - - - acataca