Sequence
atgc intronic sequence ATGC exonic sequencegtaagactcctttcttccccttggtttaaactttaaagactgaacagctgtggccaacgatctaatacgtcgggatttgtgatagGTCCTTGTTAGGAATGTACCTCCGGACGCAGATGAATCTGTAAGTGAACTGGTAGAGCATTTTTTCCTGGTCAATCATCCTGATCACTACCTAACACATC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G22120.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G22120.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G39320.1 (Glycine max), 3'ss of exon 4
---------------gtaagactcctttcttccccttggtt-taaactttaaagact-gaacagctgtggccaacgatctaatacgtcgggatttgtgatagGTCCTTGTTAGGAATGTACCTCCGGACGCAGATGAATCTGTAAGTGAACTGGTAGAGCATTTTTTCCTGGTCAATCATCCTGATCACTACCTAACACATC
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gttatggactgaaaggttacaccacttacatattagcatttatatatatgagatattcgatcatgcatattttgcttattgaaaaa--aatattattttcagGTGCTCGTTAGAAACATTCCACCAGATCCTGATGAATCTGTAAGTGAGCTTGTGGAGCACTTTTTTCTGGTCAACCATCCAGATAACTATCTTACTCACC
upper sequence: AT4G22120.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv10s0116g00940.t01 (Vitis vinifera), 3'ss of exon 3
-----gtaagactcct-----ttcttccccttggtttaaactttaaagactgaacagctgtggccaacgatctaatacgtcgggatttg-----tgatagGTCCTTGTTAGGAATGTACCTCCGGACGCAGATGAATCTGTAAGTGAACTGGTAGAGCATTTTTTCCTGGTCAATCATCCTGATCACTACCTAACACATC
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ttcatttaggtttactagttatacagctccaaattatatattttcatgattccttccttttcattgccatgtttgtgtaatggattttggttatttgcagGTCCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATCMapped 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|164036982|gb|ES189731.1|ES189731EST: GACCAGTTCACT GTCCTTGTTAGGAATGTACCTCCGGACGCAGATGAATCTGTAAGTGAACTG
genomic: GACCAGTTCACTgtaagactcc ... tttgtgatagGTCCTTGTTAGGAATGTACCTCCGGACGCAGATGAATCTGTAAGTGAACTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttaaagactgaacagctgtggccaacgatctaatacgtcgggatttgtgatagGTCCTTGTTAGGAATGTACCTCCGGACGCAGATGAATCTGTAAGTGAACTGGTAGAGCATTTTTTCCTGGTCAATCATCCTGATCACTACCTAACACATC
atctaat putative branch site (score: 3)
atctaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagactcctttcttccccttggtttaaactttaaagactgaacagctgtggccaacgatctaatacgtcgggatttgtgatagGTCCTTGTTAGGAATGTACCTCCGGACGCAGATGAATCTGTAAGTGAACTGGTAGAGCATTTTTTCCTGGTCAATCATCCTGATCACTACCTAACACATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA