Sequence
atgc intronic sequence ATGC exonic sequencegtatgtagtttcctgtctctaatgcttttaatccccgaaactagtttccaatagtcactgaaatgccatttgctccttgtaccagGCTACTGTTACATACTACCTGTTATTGGATAACCGGTTCCGTGTTCCAAGTGGCTATCTAGAATCCGAGTTTCAGGAGACAACA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G29160.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G29160.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G26180.1 (Glycine max), 3'ss of exon 7
gtatgtagtttcctgtctctaatgcttttaatccccgaaactagtttccaatagtcactgaaatgccatttgctccttgtaccagGCTACTGTTACATACTACCTGTTATTGGATAACCGGTTCCGTGTTCCAAGTGGCTATCTAGAATCCGAGTTTCAGGAGACAACA
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--------gtttgtgcctttgattttctc--cttctatatctg---tcagataaatcccttacttccatccatgtatt---tcagGGTACTGTGGCATACTATTTGTTATTGGACAACCGATTCCGTGTTTCCAGTGGCTATCTTGGAGCTGAGTTTCAAGAGACCATG
upper sequence: AT3G29160.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------gtatgtagtttcctgtctctaatgcttttaatccccgaaactagtttccaatagtcactgaaat--gccatttgc-tccttgta-------ccagGCTACTGTTACATACTACCTGTTATTGGATAACCGGTTCCGTGTTCCAAGTGGCTATCTAGAATCCGAGTTTCAGGAGACAACA
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gtataccattcctgacccttcaaactccttgtgtc-ttttctatcctccagatcccaaaaaaaaaaaaaaaacttattataattttccaattctgctttctgagttcttgcaaaatatttcagGCTACCGTTGCATACTATTTGCTATTGGACAACCGTTTCCGTGTTTCCAGTGGCTATCTTGGAGCTGAGTTTCAGGAATCTTTGMapped 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|47832194|gb|CK121878.1|CK121878EST: TTGATAGAAACCAGGTTTTGGAATCTCTACGCAACAGAACACAAAACGAT GCTACTGTTACATACTACCTGTTATTGGATAACCGGTTCCGTGTTCCAAGT
genomic: TTGATAGAAACCAGGTTTTGGAATCTCTACGCAACAGAACACAAAACGATgtatgtagtt ... cttgtaccagGCTACTGTTACATACTACCTGTTATTGGATAACCGGTTCCGTGTTCCAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atccccgaaactagtttccaatagtcactgaaatgccatttgctccttgtaccagGCTACTGTTACATACTACCTGTTATTGGATAACCGGTTCCGTGTTCCAAGTGGCTATCTAGAATCCGAGTTTCAGGAGACAACA
ttttaat putative branch site (score: 3)
tttgctcctt putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtagtttcctgtctctaatgcttttaatccccgaaactagtttccaatagtcactgaaatgccatttgctccttgtaccagGCTACTGTTACATACTACCTGTTATTGGATAACCGGTTCCGTGTTCCAAGTGGCTATCTAGAATCCGAGTTTCAGGAGACAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA