Sequence
atgc intronic sequence ATGC exonic sequencegtattctatatgaactctgttagtgttatccagtaattagagttgagatttttccttctgtttagtccactcattcattgttttatcttacaaaatactaacgtcttcatatgattacctcaaaatttagCGGCTCCTTACGGATGAATCACCTCGCTTGAGAGAGGCTTTACGCTACACAATATATGGGAAGACTGGCGTTTTTGATGCTGAAAGATTCATCGATGTGA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G24190.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G24190.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G24540.1 (Glycine max), 3'ss of exon 11
gtattctatatgaactctgttagtgttatccagtaattagagttgagatttttccttctgtttagtccactcattcattgttttatcttacaaaatactaacgtcttcatatgattacctcaaaatttagCGGCTCCTTACGGATGAATCACCTCGCTTGAGAGAGGCTTTACGCTACACAATATATGGGAAGACTGGCGTTTTTGATGCTGAAAGATTCATCGATGTGA
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-----------------------tgcctgaccacacttgtaactgg--cttctgctattatatgacactctt-ttgattcttctgagtaatctga-attgatatttattcatcacgttctctta---tagAGGCTCCTCACGGATGAATCTCCTCGGCTAAGGGATGCTCTACGTTACACTATATATGGTAAATCTGGAGTTTTTGATGCTGAAAGATTTATTGATGTCA
upper sequence: AT3G24190.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G18870.1 (Glycine max), 3'ss of exon 10
gtattctatatgaactctgttagtgttatccagtaattagagttgagatttttccttctgtttagtccactcattcattgttttatcttacaaaatactaacgtcttcatatgattacctcaaaatttagCGGCTCCTTACGGATGAATCACCTCGCTTGAGAGAGGCTTTACGCTACACAATATATGGGAAGACTGGCGTTTTTGATGCTGAAAGATTCATCGATGTGA
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------------------------attttgca-tgaccacacttgtaactggcttctgttattatattacactcttttgattcttctgaataatctgaattgatattcatcacattctctta-----tagAGGCTCCTCACAGATGAATCTCCTCGGCTAAGGGATGCTCTGCGTTACACTATATATGGGAAATCTGGGGTTTTTGATGCTGAAAGATTTATTGATGTCA
upper sequence: AT3G24190.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv05s0136g00140.t01 (Vitis vinifera), 3'ss of exon 10
gtattctatatgaactctgttagtgttatccagtaattagagttgag-atttttccttctgtttagtccactcattcattgttttatcttacaaaatactaacgtcttcatatgattacctcaaaatttagCGGCTCCTTACGGATGAATCACCTCGCTTGAGAGAGGCTTTACGCTACACAATATATGGGAAGACTGGCGTTTTTGATGCTGAAAGATTCATCGATGTGA
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-----------------------------acaggtattgtagttggctatttataattcggacatacttgtt--ttcatcagctattctcagattgaagcaaaatttattttcttctttgttcaatgtcagAGGCTCCTGACTGATGAGTCACCTCGTTTAAGGAATGCATTACGATATACAATATATGGAAAATCTGGAGTTTTTGATGCTGAAAGATTCATTGATGTCAMapped 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|301502984|gb|HO208524.1|HO208524EST: GGAATCCTGAATTTGCTATTGTGGATGAGGCTTATCCTTATATCGCTCAG CGGCTCCTTACGGATGAATCACCTCGCTTGAGAGAGGCTTTACGCTACACA
genomic: GGAATCCTGAATTTGCTATTGTGGATGAGGCTTATCCTTATATCGCTCAGgtattctata ... caaaatttagCGGCTCCTTACGGATGAATCACCTCGCTTGAGAGAGGCTTTACGCTACACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattgttttatcttacaaaatactaacgtcttcatatgattacctcaaaatttagCGGCTCCTTACGGATGAATCACCTCGCTTGAGAGAGGCTTTACGCTACACAATATATGGGAAGACTGGCGTTTTTGATGCTGAAAGATTCATCGATGTGA
tactaac putative branch site (score: 0)
ttacctc putative PPT
ttttatcttacaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattctatatgaactctgttagtgttatccagtaattagagttgagatttttccttctgtttagtccactcattcattgttttatcttacaaaatactaacgtcttcatatgattacctcaaaatttagCGGCTCCTTACGGATGAATCACCTCGCTTGAGAGAGGCTTTACGCTACACAATATATGGGAAGACTGGCGTTTTTGATGCTGAAAGATTCATCGATGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG