Sequence
atgc intronic sequence ATGC exonic sequencegttcaaatttgttctctttcattccctcttggcaactttgaagtcttccttttaacttaagggtgcacttcttctggttttcaactatttttagGGGTTTATGACTCTGCTTTCAGAACAAATATCATCTCTCAACGAGAGAATGGATGAGTTCACAAGTCGAATTGAAGAGCTCAATTCAAAGTTGAGCTGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G26190.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G26190.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA02G14110.1 (Glycine max), 3'ss of exon 10
-------------------------gttcaaatttgttctctttc--attccctcttggcaactttgaagtcttccttttaact-taagggtgcacttcttctggttttcaac----tatttt-tagGGGTTTATGACTCTGCTTTCAGAACAAATATCATCTCTCAACGAGAGAATGGATGAGTTCACAAGTCGAATTGAAGAGCTCAATTCAAAGTTGAGCTGCA
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gtaaattgggttacttgtagtggttgttaattcctgtaaagataccgaattcttataatcacttttatattggtccattccccaataaccatctactttttgtcttcatttacctaatattttgtagGGAGCGATCAATCAGCTTTCGGACCAAATTTCTGCCCTCAATGATAGAATGGATGAGTTTACAAATCGCATTGAAGAGCTGAATTCCAAGTTAACCATAA
upper sequence: AT1G26190.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 10
----------------------gttcaaatttgttct-----ctttcattccctcttggcaactttgaagtcttccttttaact-taagggtgcacttcttctggtt-ttcaactatttt--tagGGGTTTATGACTCTGCTTTCAGAACAAATATCATCTCTCAACGAGAGAATGGATGAGTTCACAAGTCGAATTGAAGAGCTCAATTCAAAGTTGAGCTGCA
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gtactttgagttacgtgcagtagtttttaattcctgtaaagatactgaattcatattatcacttctatattggtccattccccaataactatctactttttgtcttcatttacctaatatggtagGGAACCATCAATCAGCTTTCAGACCAAATTTCTGCCCTCAATGATAGAATGGACGAGTTTACAAATCGCATTGAAGAGCTGAATTCCAAGTTAACCATCA
upper sequence: AT1G26190.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 9
---------------gttcaaatttgttctctttcattccctcttggcaactttgaagtcttccttttaacttaagggtgca------cttcttctggtt--ttca-actatttttagGGGTTTATGACTCTGCTTTCAGAACAAATATCATCTCTCAACGAGAGAATGGATGAGTTCACAAGTCGAATTGAAGAGCTCAATTCAAAGTTGAGCTGCA
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gtgatttattcatttgtcaagaaattaagttactaatttctt--tggc--tttttatgttgccttcttggtataatgctgtagcaaggtttttactcattgatccgtgttatgtttagGGAGCCATTACTCAGCTGTCAGAACAAATTTCATCACTAAATGATAGGATGGATGAATTTACAAGTCAGATTGAAGAGCTGAATTCCAAGTTAACCATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagtcttccttttaacttaagggtgcacttcttctggttttcaactatttttagGGGTTTATGACTCTGCTTTCAGAACAAATATCATCTCTCAACGAGAGAATGGATGAGTTCACAAGTCGAATTGAAGAGCTCAATTCAAAGTTGAGCTGCA
ttttaac putative branch site (score: 2)
ctattttt putative PPT
ttttcaactattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcaaatttgttctctttcattccctcttggcaactttgaagtcttccttttaacttaagggtgcacttcttctggttttcaactatttttagGGGTTTATGACTCTGCTTTCAGAACAAATATCATCTCTCAACGAGAGAATGGATGAGTTCACAAGTCGAATTGAAGAGCTCAATTCAAAGTTGAGCTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC