Sequence
atgc intronic sequence ATGC exonic sequenceATGATGTCTCAACTAGCCAGTCTTATCATGGATATCATTGCTGGAGCATACAAGGCTTTGGACGAAAAATACAGCGAAGCCTTTCTTGATAGAAGGAACTgtgagtatctgaaacttcaaagttgtttagttctcattatcttgaatgaaacagctaagtattgttctgtttttgttgttttttttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G14460.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G14460.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA17G00620.1 (Glycine max), 5'ss of exon 4
ATGATGTCTCAACTAGCCAGTCTTATCATGGATATCATTGCTGGAGCATACAAGGCTTTGGACGAAAAATACAGCGAAGCCTTTCTTGATAGAAGGAACTgtgagtatctgaaacttcaaagttgtttagttctcattatcttgaatgaaacagctaagtattgttctgtttttgttgttttttttgtag--------------
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TTGATGTCTCAACTAGCCGGTCTTATCATGGATATCATTGCTGGATCATATGCAGTCATTGACACCAAACCTGATGATTCATTCTTTGGTGGACGGAGTTgtgagtac----aattcttacttagatttaataagatttttatctgttattcatcttaattttggccttaatatgttattctccttaaatcacacagaataact
upper sequence: AT1G14460.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G40180.1 (Glycine max), 5'ss of exon 4
ATGATGTCTCAACTAGCCAGTCTTATCATGGATATCATTGCTGGAGCATACAAGGCTTTGGACGAAAAATACAGCGAAGCCTTTCTTGATAGAAGGAACTgtgagtat--------ctgaaacttcaaagttgtttagttctcattatcttgaatgaaacagctaagtatt-gttctgtttttgttgtttt----ttttgtag---------------------------------------------------------------------------------------------
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TTGATGTCTCAACTAGCCGGTCTTATCATGGACATCATTGCTGGATCATATGCAGTCATTGACACCAAACCTGATGATTCATTTTTTGGTGGACGGAGTTgtgagtacaatccctgcttagatttaataagatttttatttatgttattcatcttaaaaca-cagaatatcagttttttggttgtgaccttgggctttgatacatattatcaattgttataatgtcgtgtgttataataatgaaaattcaaccatcgtctgatgattattgaaatgcacttggatttcatgctcag
upper sequence: AT1G14460.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv12s0035g01960.t01 (Vitis vinifera), 5'ss of exon 2
ATGATGTCTCAACTAGCCAGTCTTATCATGGATATCATTGCTGGAGCATACAAGGCTTTGGACGAAAAATACAGCGAAGCCTTTCTTGATAGAAGGAACTgtgagtatctgaaacttcaaagttgtttagttctcattatcttgaatgaaacagctaagt---attgttctgtttttgttgttttttttgtag--------
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TTGATGTCTCAATTGGCCAGCCTTATTATGGATATCATTGCTGGAACATATCACATTGTTGATGCCCAACAAAGCGATTCATTCTTTGGGGGACGAAGTCgtgagtataatccacttgactatgatatagttgtt-tcttttaaagtcaagctcctatggccaaatattttagatctatacttttaaatgaattagtctatMapped 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|116454929|gb|EG497521.1|EG497521EST: CAAGGCTTTGGACGAAAAATACAGCGAAGCCTTTCTTGATAGAAGGAACT TGACTGAAGCGGATTTGGAGAGACTAAAGCATGCTTTGAAACTTCCTTCTG
genomic: CAAGGCTTTGGACGAAAAATACAGCGAAGCCTTTCTTGATAGAAGGAACTgtgagtatct ... ttttttgtagTGACTGAAGCGGATTTGGAGAGACTAAAGCATGCTTTGAAACTTCTTTCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGATGTCTCAACTAGCCAGTCTTATCATGGATATCATTGCTGGAGCATACAAGGCTTTGGACGAAAAATACAGCGAAGCCTTTCTTGATAGAAGGAACTgtgagtatctgaaacttcaaagttgtttagttctcattatcttgaatgaaacagctaagtattgttctgtttttgttgttttttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA