Sequence
atgc intronic sequence ATGC exonic sequencegtaaagtaatcagcttgtatctctttatcttttgaatcatgctaatgaaagattctaataacaacattcaatctcaatcttgatagGATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCCAACTTATGCTGCTGCTATACAACCATCAATCCCTGTCTTTACATTTCTC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G45370.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G45370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G09540.1 (Glycine max), 3'ss of exon 2
gtaaagtaatcagcttgtatctctttatcttttgaatcatgctaatgaaagattctaataacaacattcaatctcaatcttgat-agGATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCCAACTTATGCTGCTGCTATACAACCATCAATCCCTGTCTTTACATTTCTC
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gtaagatttcttgctatagtcacttatttcccattttcgtgattttttaatgcatactctaattttttcttcatgattcatgatcagGATATTTGGCAACCAGCTTTTGTTTCTTATTGGTTTAAGTTATACTAATCCAACTTATGCTGCTGCTGTACAGCCAGCCATTCCAGTCTTTACATTTCTG
upper sequence: AT5G45370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G09520.1 (Glycine max), 3'ss of exon 2
----------gtaaagtaatcagcttgtatctctttatcttttgaatcatgctaa---tgaaagattctaataacaacattcaatctcaatct-tgat-agGATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCCAACTTATGCTGCTGCTATACAACCATCAATCCCTGTCTTTACATTTCTC
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gtgaggctcttgatactacttatttcctatttccactacatatgaaagatacagtgttttattgatgcatgaggtaacgttacttcttgattcatgatcagGATATTTGGCAACCAGCTTTTGTTTCTTATTGGTTTAAGCTATACTAATCCAACTTATGCGGCTGCCATACAGCCATCCATTCCAGTCTTTACCTTTCTG
upper sequence: AT5G45370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv02s0087g00880.t01 (Vitis vinifera), 3'ss of exon 2
------------------------------------gtaaagtaatcagcttgtatctctttatcttttgaatcatgctaatgaaagattctaataacaacattcaatctcaatcttgatagGATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCCAACTTATGCTGCTGCTATACAACCATCAATCCCTGTCTTTACATTTCTC
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gtaaggcttggcaactctcaggccttttctggttgcacttgttatttacataatatatccatatatttagagtggtagatttacaccattttgttgcttaaatcttgtc---attcaaatagGATATTTGGGAACCAGCTTCTGTTTCTTATTGGACTTAGCTACACAAATCCAACTTATGCAGCTGCCACACAACCTGCAATTCCAGTCTTTACATTTATAMapped 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|86073275|gb|DR369032.1|DR369032EST: CCTATGAATAGAAGCATCTTCTTTTCACTCTTCTTTCTTGGTTTAGCAGG GATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCC
genomic: CCTATGAATAGAAGCATCTTCTTTTCACTCTTCTTTCTTGGTTTAGCAGGgtaaagtaat ... atcttgatagGATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCC
EST:
gi|19879168|gb|AU239999.1|AU239999EST: CCTATGAATAGAAGCATCTTCTTTTCACTCTTCTTTCTTGGTTTAGCAGG GATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCC
genomic: CCTATGAATAGAAGCATCTTCTTTTCACTCTTCTTTCTTGGTTTAGCAGGgtaaagtaat ... atcttgatagGATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaatcatgctaatgaaagattctaataacaacattcaatctcaatcttgatagGATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCCAACTTATGCTGCTGCTATACAACCATCAATCCCTGTCTTTACATTTCTC
taataac putative branch site (score: 1)
aaagattctaataa 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
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gtaaagtaatcagcttgtatctctttatcttttgaatcatgctaatgaaagattctaataacaacattcaatctcaatcttgatagGATATTTGGGAACCAGTTACTATTTCTTATGGGTTTATCTTACACGAATCCAACTTATGCTGCTGCTATACAACCATCAATCCCTGTCTTTACATTTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT