Sequence
atgc intronic sequence ATGC exonic sequence...acgaaaacgccactccccacccaaaacttgtaaactaaccttgtctttaatgttttactacggatttgccaccctaattccattttttgtttggttacagTTGTTTGATTTCGCCGACAAATACAGAGGAAAATACGACAGCAGTATCACTGTTGCCCAGAAATACTACCGATCCGTCAGCGGTTACAAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G64390.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G64390.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G36930.1 (Glycine max), 3'ss of exon 3
acgaaaacgccactccccacccaaaacttgtaaactaaccttgtctttaatgttttacta--cggatttgccaccctaattccattt---tttgtttggttacagTTGTTTGATTTCGCCGACAAATACAGAGGAAAATACGACAGCAGTATCACTGTTGCCCAGAAATACTACCGATCCGTCAGCGGTTACAAT
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---gattcatttattgagaattatggtac-tcgattgacttta-ctccattccttttccatccggacttgttcaacttactctctctgggtttgttcaatttcagCTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATTACGGTTGCCCAGAAATATTACAGATCCATCAGTGGTTACAAT
upper sequence: AT1G64390.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G02610.1 (Glycine max), 3'ss of exon 3
acgaaaacgccactccccacccaaaac--ttgtaaactaaccttgtctttaatgttttactac--ggatttgccaccctaattccatttt---ttgtttggttacagTTGTTTGATTTCGCCGACAAATACAGAGGAAAATACGACAGCAGTATCACTGTTGCCCAGAAATACTACCGATCCGTCAGCGGTTACAAT
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------gattcatttattgagaataatggtactcgattgacttta-ctccattctttttctacccggacctgctcaactgactctctctggggttgttcaatttcagCTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATCACGGTTGCCCAAAAGTATTACAGATCCATCAGTGGTTACAAT
upper sequence: AT1G64390.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 5
acgaaaacgccactccccacccaaaacttgtaaactaaccttgtctttaatgttttactacggatttgccaccctaattccattttttgt-ttggttacagTTGTTTGATTTCGCCGACAAATACAGAGGAAAATACGACAGCAGTATCACTGTTGCCCAGAAATACTACCGATCCGTCAGCGGTTACAAT
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-cttcccctcaacctctcttcccaaactacccttcatgttttatcatatctactgaattacccttcagtcactaacacatgttctaaaatcttattttcagCTGTTCGAGTTTGGAGACAAATACAGGGGCAAATATGACAGCAGCATCACAGTGGCCCAGAAGTACTACCGGTCTTACAGTGGATACGCTMapped 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|116479730|gb|EG522322.1|EG522322EST: GCCGATCTAACCCTGTTTACTCTAGGCTACTACTCACTCACGCCTATCAG TTGTTTGATTTCGCCGACAAATACAGAGGAAAATACGACAGCAGTATCACT
genomic: GCCGATCTAACCCTGTTTACTCTAGGCTACTACTCACTCACGCCTATCAGgtaaaaaact ... ttggttacagTTGTTTGATTTCGCCGACAAATACAGAGGAAAATACGACAGCAGTATCACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaatgttttactacggatttgccaccctaattccattttttgtttggttacagTTGTTTGATTTCGCCGACAAATACAGAGGAAAATACGACAGCAGTATCACTGTTGCCCAGAAATACTACCGATCCGTCAGCGGTTACAAT
ccctaat putative branch site (score: 3)
ttccattttttgttt CT-rich tract
taattccatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acgaaaacgccactccccacccaaaacttgtaaactaaccttgtctttaatgttttactacggatttgccaccctaattccattttttgtttggttacagTTGTTTGATTTCGCCGACAAATACAGAGGAAAATACGACAGCAGTATCACTGTTGCCCAGAAATACTACCGATCCGTCAGCGGTTACAAT
-cgaaaac
- - - - -ccactcc
- - - - - - - - - - ccaaaac
- - - - - - - - - - - - - - - -aaactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - accctaa