Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttcaatgtcatccttctctttttatttctggctatggaattgtcagttttataaagagctgattatcagataaagATATGTATGTTGCAGATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G61700.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G61700.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA16G02860.2 (Glycine max), 3'ss of exon 7
-------------gtaagtttcaatgtcatccttctctttttatttctggctatggaattgtcagttttataaagagctgattatcagataaagATATGTATGTTGCAGATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGA-----
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ttgaaatgactaaatgcagtcaaggattataatcaagattttatatatgttca-atcattgttggtctcttcttgcttttactgtct--------tgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
upper sequence: AT3G61700.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 7
---gtaagtttcaatgtcatccttctctttttatttctggctatggaattgt-cagtt-ttataaagagctgatta-tcagataaagATATGTATGTTGCAGATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGA-----
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tagaaatgactaaatgcagtcaacaa--taatactcaagaatttataaatgttcaatcattgttggtgtcttcttgcttttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
upper sequence: AT3G61700.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
gtaagtttcaatgtcatccttctctttttatttctgg-ctatggaattgtcagttttataaagagctgattatcagataa-----agATATGTATGTTGCAGATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGA-----
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-tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccattatg-agcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatttctggctatggaattgtcagttttataaagagctgattatcagataaagATATGTATGTTGCAGATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGA
agctgat putative branch site (score: 4)
agttttataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttcaatgtcatccttctctttttatttctggctatggaattgtcagttttataaagagctgattatcagataaagATATGTATGTTGCAGATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA