Sequence
atgc intronic sequence ATGC exonic sequencegtatatatctacttacgttcttgtattagtcgtattctcaagcgtataacggaaaatctgcaataattatctggtttttgcatctgtggagattggcacttactaattagaagtgttaactaaacatgtagGTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCTCATTCCAGCAAGTGAGCTTTCTCAGCACATCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G29320.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G29320.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA13G06040.1 (Glycine max), 3'ss of exon 11
gtatatatctacttacgttcttgtatta--gtcgtattct--caagcgtataacggaaaatctgcaataattatctggtttttgcatctgtggagattggcacttactaattagaagtgttaactaaacatgtagGTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCTCATTCCAGCAAGTGAGCTTTCTCAGCACATCAG
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---gttaacttcgtacattttttcagtaagatcatatttttgcaaatggatggtaaaaaat-----attgttaatttgttatt-----------------tatttacttgttta------tatttaatca----gGTTGTTTTTGTCCCTGATTACAATGTCAGTGTTGCTGAGATGCTTATTCCAGCAAGTGAATTGTCACAACATATCAG
upper sequence: AT3G29320.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA19G03490.1 (Glycine max), 3'ss of exon 11
gtatatatctacttacgttcttgtattagtcgtattctcaagcgtataacggaaaatctgcaataattatctggtttttgcatc-tgtggagattggcacttactaattagaagtgttaactaaacatgtagGTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCTCATTCCAGCAAGTGAGCTTTCTCAGCACATCAG
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----------------------------ttaatttcctacaattttttcagtaaggtcagatttttgcaagtggatgctacaaaatattgttaatt-tgttttttatttggttgtttatgtttaat---cagGTTGTTTTTGTCCCTGATTATAATGTCAGTGTTGCCGAGATGCTTATTCCAGCAAGTGAATTGTCACAACATATCAG
upper sequence: AT3G29320.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv14s0108g01560.t01 (Vitis vinifera), 3'ss of exon 11
gtatatatctacttacgttcttgtattagtcgtattctcaagcgtataacggaaaatctgcaataattatctggtttttgcatctgtggagattggcacttactaattagaagtgt---taactaaacatgtagGTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCTCATTCCAGCAAGTGAGCTTTCTCAGCACATCAG
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-----------------------------ttaaaaattcagcaaaataac--aatatttacatcagtttcttgctgcagttgtttgtactactaacca--taaggattgggtttttccttatttttatat-cagGTTGTTTTTGTCCCTGATTACAATGTCAGTGTTGCTGAACTGCTTATTCCTGCAAGTGAACTTTCACAGCATATCAGMapped 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|164077640|gb|ES046680.1|ES046680EST: TTAACCATGATCCAGAAATAGGTGACCTCCTTAAG GTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCTCATTCCA
genomic: TTAACCATGATCCAGAAATAGGTGACCTCCTTAAGgtatatatct ... aaacatgtagGTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCTCATTCCA
EST:
gi|124954357|gb|EL029458.1|EL029458EST: GTCTACAATTAACCATGATCCAGAAATAGGTGACCTCCTTAAG GTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCTACATTCC
genomic: GTCTACAATTAACCATGATCCAGAAATAGGTGACCTCCTTAAGgtatatatct ... aaacatgtagGTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCT-CATTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgcatctgtggagattggcacttactaattagaagtgttaactaaacatgtagGTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCTCATTCCAGCAAGTGAGCTTTCTCAGCACATCAG
ttactaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatatctacttacgttcttgtattagtcgtattctcaagcgtataacggaaaatctgcaataattatctggtttttgcatctgtggagattggcacttactaattagaagtgttaactaaacatgtagGTTATCTTTGTTCCTGATTACAATGTCAGTGTTGCTGAATTGCTCATTCCAGCAAGTGAGCTTTCTCAGCACATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT