Sequence
atgc intronic sequence ATGC exonic sequenceCATTTTGCCCCAGGAGCTTTGTGACGCCTTAAAGGAAGATGGAGGAGATGACTGTGTGGATGTCGCCAATGATATATTCCAAGAAGTTGACACAGACAAGgtaagtgtcaaatcttctgtctatggtatgatctcatcatgttcaaaagaaactcaaaagagctttcttttgcaagagtgttaggaaaccaaagttgtga...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G51850.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G51850.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G088361_T01 (Zea mays), 5'ss of exon 6
CATTTTGCCCCAGGAGCTTTGTGACGCCTTAAAGGAAGATGGAGGAGATGACTGTGTGGATGTCGCCAATGATATATTCCAAGAAGTTGACACAGACAAGgtaagtgtcaaatcttctgtctatggtatgatctcatcatgttcaaaagaaactcaaaagagctttcttttgcaagagtgttaggaaaccaaagttgtga------
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CATCGAGCCCGAGGAGCTTCAGGAAGCCCTGATGGAGGACGGGGGAGCTGATACCATGGACGTGGTCAATGACATATTGCAAGAAGTTGACACAGACAAGgttaacg----atccaccaccgaaggc-tcctgcgatagcttgtggctgtgccttcaaatc-ctatcgttagtcaggccgc-aataacttcccgttgtttctgcag
upper sequence: AT3G51850.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA18G43160.1 (Glycine max), 5'ss of exon 8
CATTTTGCCCCAGGAGCTTTGTGACGCCTTAAAGGAAGATGGAGGAGATGACTGTGTGGATGTCGCCAATGATATATTCCAAGAAGTTGACACAGACAAGgtaagtgtcaaatcttctgtctatggtatgatctcatcatgttcaaaagaaactcaaaagagctttcttttgcaagagtgttaggaaaccaaagttgtga
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-ATTGAACCAGATGAGCTACGGAATGCTTTGATGGAAGATGGAGCAGAGGACTGTACAGATGTAGCAAATGATATTTTCCTAGAAGTAGACACGGACAAGGtggatatttga------------gagatt-tctctttacatataggcttgatt--aggggatcttaccatataaaattcttgaacacttgcagg-----
upper sequence: AT3G51850.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G18310.1 (Glycine max), 5'ss of exon 6
CATTTTGCCCCAGGAGCTTTGTGACGCCTTAAAGGAAGATGGAGGAGATGACTGTGTGGATGTCGCCAATGATATATTCCAAGAAGTTGACACAGACAAGgtaagtgtcaaatcttctgtctatggtatgatctcatcatgttcaaaagaaactcaaaagagctttcttttgcaagagtgttaggaaaccaaagttgtga
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TATTGAACCAGATGAGCTACGGAATGCTTTGATGGAAGATGGAGCAGATGACTGTACAGATGTAGCGAATGACATTTTCCTAGAAGTAGACACGGACAAGgtgtg-----aatattcgagagatt------tttctttacatataggcttgatt--aggggatcttaccctctaaaattcttgaacacttgcag------
upper sequence: AT3G51850.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv08s0105g00390.t01 (Vitis vinifera), 5'ss of exon 6
CATTTTGCCCCAGGAGCTTTGTGACGCCTTAAAGGAAGATGGAGGAGATGACTGTGTGGATGTCGCCAATGATATATTCCAAGAAGTTGACACAGACAAGgtaagtgtcaaatcttctgtctatggtatgatctcatcatgttcaaaagaaactcaaaagagctttcttttgcaagagtgttaggaaaccaaagttgtga
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CATTGAGCGAGATGAGCTTCGGGATGCCTTGATGGAAGATGGAGCAGATGATTGTACAGATGTAGCAAATGACATCTTCCAAGAAGTGGACACGGACAAGgtaaagatccagtagtttgccatcaactcgatttt----catccagcagat-tataaatgactttatttttgtcttacaatgcag---------------Mapped 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|116407590|gb|EG450182.1|EG450182EST: ACTGTGTGGATGTCGCCAATGATATATTCCAAGAAGTTGACACAGACAAG GATGGGAGAATAAGCTACGAAGAGTTTGCGGCAATGATGAAAACAGGAACG
genomic: ACTGTGTGGATGTCGCCAATGATATATTCCAAGAAGTTGACACAGACAAGgtaagtgtca ... ttgacattagGATGGGAGAATAAGCTACGAAGAGTTTGCGGCAATGATGAAAACAGGAACG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATTTTGCCCCAGGAGCTTTGTGACGCCTTAAAGGAAGATGGAGGAGATGACTGTGTGGATGTCGCCAATGATATATTCCAAGAAGTTGACACAGACAAGgtaagtgtcaaatcttctgtctatggtatgatctcatcatgttcaaaagaaactcaaaagagctttcttttgcaagagtgttaggaaaccaaagttgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaagag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaccaa