Sequence
atgc intronic sequence ATGC exonic sequencegtatgttctgttaaatggaatttacttcattgtaacattcggttgatattttttggtgcatctattttgtttcgttagtctgaactattttggtcctggactttgcagTGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAGCAGATTGTACCTATGCTGACAAATTTGTGGAAGAGAATTCAGAATGGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G46020.2 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G46020.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA09G39380.1 (Glycine max), 3'ss of exon 13
gtatgttctgttaaatggaatttacttcattgtaacattcggttgatattttttggtgcatctattttgtttcgttagtctgaactattttggtcctggactttgcagTGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAGCAGATTGTACCTATGCTGACAAATTTGTGGAAGAGAATTCAGAATGGTT
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--attcggtgttaaacaaa-----ccatgttggggatgtttcctgtagtttttttgcctgcctgttcagtgtaagta-tatgaactcacacaacttgttcatatgcagTGCAAAAATGTAATTAGCAAGCTCCAAAGGAGAATCGACAAGGAAGGCCATCAAATTGTACCTTTGCTAACAGATTTGTGGAAGAGGATTGAGAATTCTG
upper sequence: AT2G46020.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA18G46930.1 (Glycine max), 3'ss of exon 11
gtatgttctgttaaatggaatttacttcattgtaacattcggttgatattttttggtgcatctattttgtttcgttagtctgaactattttggtcctggactttgcagTGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAGCAGATTGTACCTATGCTGACAAATTTGTGGAAGAGAATTCAGAATGGTT
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-tccattccgt---gttaaataaaccatgttgggaatgtttcctg-tagttttttgcctgcctgttctgtgtaagt-gtatgaacc--cacaatttgttcacatgcagTGCAAAAATGTAATTAGCAAGCTCCAAAGGAGAATAGACAAGGAAGGCCATCAAATTGTACCTTTGCTAACAGATTTGTGGAAGAGGATGGAGAATTCTG
upper sequence: AT2G46020.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA07G07550.1 (Glycine max), 3'ss of exon 11
gtatgttctgttaaatggaatt-tacttcattgtaacattcggttgatattttttggtgcatctattttgtttcgttagtctgaactattttggtcctggactttgcagTGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAGCAGATTGTACCTATGCTGACAAATTTGTGGAAGAGAATTCAGAATGGTT
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-----tttgactagacttatttgcaggctatataaatattc---tcaaatctccatgtttgctcatgtacttaaagta-tttaaactcatttgatttctgtactggcagTGCAAAAATGTAATTAGCAAGCTCCAAAGGAGAATAGACAAGGAAGGCCATGAGATTGTTCCTTTGTTAACGGATTTGTGGAAGAGGATTGAAAATTCTG
upper sequence: AT2G46020.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA16G03950.1 (Glycine max), 3'ss of exon 12
gtatgttctgttaaatggaatttacttcattgtaacattcggttgatattttttggtgcatctattttgtttcgttagtctgaactattttggtcctggactttgcagTGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAGCAGATTGTACCTATGCTGACAAATTTGTGGAAGAGAATTCAGAATGGTT
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gactggactttt---tgcaggctatataaatttattctcaaatttccatgttt--gctcatgtacttaaa---agtattttaaacgaatttgatttctgtactggcagTGCAAAAATGTAATTAGCAAGCTCCAAAGGAGAATAGACAAGGAAGGCCATGAGATTGTGCCTTTGTTAATGGATTTGTGGAAGAGGATTGAAAATTCTG
upper sequence: AT2G46020.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 12
gtatgttctgttaaatggaatttacttcattgtaacattcggttgatattttttggtgcatc--tattttgtttcgttagtctgaactattttggtcctggactttgcagTGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAGCAGATTGTACCTATGCTGACAAATTTGTGGAAGAGAATTCAGAATGGTT
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--ttgtcattctttttgga--tagttacaagtctcctttttttttttttttttttgtacataagcatataattgaaatcacctgagatttatccata------tttgcagTGTAAGAATGTAATTAGCAAGCTCCAAAGGAGAATAGACAAGGAAGGTCATCAAATTGTACCTCTGTTAACAGATTGGTGGAAGAGGGTTGAAAATTCTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|47832063|gb|CK121747.1|CK121747EST: CAAGAATGTCCCACATCATACAGAAACGG TGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAG
genomic: CAAGAATGTCCCACATCATACAGAAACGGgtatgttctg ... gactttgcagTGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtgcatctattttgtttcgttagtctgaactattttggtcctggactttgcagTGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAGCAGATTGTACCTATGCTGACAAATTTGTGGAAGAGAATTCAGAATGGTT
tattttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttctgttaaatggaatttacttcattgtaacattcggttgatattttttggtgcatctattttgtttcgttagtctgaactattttggtcctggactttgcagTGCAAAATCGTGATTAGCAAGCTCCAGAGGAGAATCGACAAGGAAGGTCAGCAGATTGTACCTATGCTGACAAATTTGTGGAAGAGAATTCAGAATGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA