Sequence
atgc intronic sequence ATGC exonic sequencegtcagtactctatctgtgtcttatttgtggggatcttatcaattgagagttcttcactatctagttaacttgttagagaatctgaactttttttaaaccccatgtttcagTTTGGAAAAGGGATATACTTTGCTGACCTTGTCAGTAAAAGTGCTCAGTACTGCTACACTTGTAAGAAAAATCCGGTGGGTCTAATGCTTCTGAGTGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G31320.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G31320.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA03G31820.1 (Glycine max), 3'ss of exon 18
---------gtcagtactctatc-tgtgtcttatttgtggggatcttatcaattgagagttcttcactatctagttaacttgttagagaatctgaactttttttaaaccccatgtttcagTTTGGAAAAGGGATATACTTTGCTGACCTTGTCAGTAAAAGTGCTCAGTACTGCTACACTTGTAAGAAAAATCCGGTGGGTCTAATGCTTCTGAGTGAAG
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gttctatctattactcccctctcatgcctcctttttttttg---cttatacttttgga---tacaaatacctaattaactttccacagaagcactaaagtctgaatattttgcattgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
upper sequence: AT2G31320.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA19G34580.1 (Glycine max), 3'ss of exon 17
---------gtcagtactctatc-tgtgtcttatttgtggggatcttatcaattgagagttcttcactatctagttaacttgttagagaatctgaactttttttaaaccccatgtttcagTTTGGAAAAGGGATATACTTTGCTGACCTTGTCAGTAAAAGTGCTCAGTACTGCTACACTTGTAAGAAAAATCCGGTGGGTCTAATGCTTCTGAGTGAAG
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gttctatctattactcccctctcatgcctcctttttttttg---cttat-atttttggatact--aatacctaattaactttccacaacagaactaaagtctgaatattttgctttgcagTTTGGCAAAGGGGTTTACTTTGCTGACCTGGTCAGCAAAAGTGCTCAGTATTGCTTCACTGATAAGAAAAATCCTGTTGGTCTAATGCTTTTGAGTGAAG
upper sequence: AT2G31320.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 17
gtcagta-ctctatctgtgtcttattt-gtggggatcttatca---attgagagttcttcactat--ctagttaacttgttagagaatctgaacttttt--ttaa--------accccat--gtttcagTTTGGAAAAGGGATATACTTTGCTGACCTTGTCAGTAAAAGTGCTCAGTACTGCTACACTTGTAAGAAAAATCCGGTGGGTCTAATGCTTCTGAGTGAAG
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gtctttctctctctccctctttcattttgtacacagatcataagtcattcaatcttctttactgtagttcattttcattttaaaacacacaaacatactcattaatcattgcaatcttatttattgtagTTTGGCAAGGGGGTTTACTTTGCTGACCTGGTCAGTAAGAGTGCTCAGTATTGCTATACTGATAGGAAAAATCCAGTTGGTTTGATGCTTCTGAGTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actatctagttaacttgttagagaatctgaactttttttaaaccccatgtttcagTTTGGAAAAGGGATATACTTTGCTGACCTTGTCAGTAAAAGTGCTCAGTACTGCTACACTTGTAAGAAAAATCCGGTGGGTCTAATGCTTCTGAGTGAAG
agttaac putative branch site (score: 3)
tgaactttttttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtactctatctgtgtcttatttgtggggatcttatcaattgagagttcttcactatctagttaacttgttagagaatctgaactttttttaaaccccatgtttcagTTTGGAAAAGGGATATACTTTGCTGACCTTGTCAGTAAAAGTGCTCAGTACTGCTACACTTGTAAGAAAAATCCGGTGGGTCTAATGCTTCTGAGTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA