Sequence
atgc intronic sequence ATGC exonic sequencegtaacttctgtgaactttgaagctaaaacagcaacatatttttccttcaattctggttttaaacatttgcaactgaaatctattttttggtgttagTTCTCGAAAGCATTGAATCGATTCCAGAAAGAGGATCCTACTTTCCGTGTGGGTTTGGATCCCGAGAGTGGCCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G45030.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os03g36780.1 (Oryza sativa), 3'ss of exon 11
gtaacttctgtgaactttgaagctaaaacagcaacatatttttccttcaattctggttttaaacatttgcaactgaaatctattttttggtgttagTTCTCGAAAGCATTGAATCGATTCCAGAAAGAGGATCCTACTTTCCGTGTGGGTTTGGATCCCGAGAGTGGCCAG
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gtatctacttttctattttca---agaatgctatattaactttaataccatacatgtgacaaataatt--aattaaaataacatttc-------agTTTTCAAAGGCTCTGAATCGTTTCCAGAAAGAGGATCCTACTTTCCGTGTAGGTCTGGATCCAGAAAGTGGAGAG
upper sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G056393_T02 (Zea mays), 3'ss of exon 11
gtaacttctgtgaactttgaagctaaaacagcaacatatttttccttcaattctggttttaaacatttgcaactgaaatctattttttggtgttagTTCTCGAAAGCATTGAATCGATTCCAGAAAGAGGATCCTACTTTCCGTGTGGGTTTGGATCCCGAGAGTGGCCAG
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-----gtatatcatatttttcatcaaaagggtacgactgctatacatagtttgttaccctagatgtcctaagtgaaaatacacctatccctttcagTTTTCAAAAGCTCTGAATCGCTTCCAAAAGGAGGATCCTACTTTCCGTGTGGGTTTGGATGCTGAGAGTGGCCAG
upper sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 11
gtaacttctgtgaactttgaagctaaaacagcaacatatttttccttcaattctggttttaaacatttgcaactgaaatctatttt--ttggtgttagTTCTCGAAAGCATTGAATCGATTCCAGAAAGAGGATCCTACTTTCCGTGTGGGTTTGGATCCCGAGAGTGGCCAG
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gtgagtaatttattttatgtaac-acgtcaaccccctgcctagatttgaaaaaagttgt--atcacct--aattggatttctcctgaattgcttacagTTTTCAAAAGCTTTGAATCGCTTCCAAAAAGAAGATCCTACTTTTCGTGTTGGCTTGGACCCGGAGAGTGGGCAG
upper sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 11
gtaacttctgtgaactttga-agctaaaacagcaacatatttttccttcaattctggttttaaacatttgcaactgaaatctattttttggtgttagTTCTCGAAAGCATTGAATCGATTCCAGAAAGAGGATCCTACTTTCCGTGTGGGTTTGGATCCCGAGAGTGGCCAG
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---------gtgagtacggccaattgagatatcaatttactttg---taactgatggtaccaaatgatggtaattt---tttatcctt--gtac-agTTTTCAAAGGCTTTGAATCGCTTTCAGAGAGAGGATCCTACTTTCCGTGTTGGGTTGGACGCTGAGAGTGGGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccttcaattctggttttaaacatttgcaactgaaatctattttttggtgttagTTCTCGAAAGCATTGAATCGATTCCAGAAAGAGGATCCTACTTTCCGTGTGGGTTTGGATCCCGAGAGTGGCCAG
tctatttttt CT-rich tract
tgaaatctatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacttctgtgaactttgaagctaaaacagcaacatatttttccttcaattctggttttaaacatttgcaactgaaatctattttttggtgttagTTCTCGAAAGCATTGAATCGATTCCAGAAAGAGGATCCTACTTTCCGTGTGGGTTTGGATCCCGAGAGTGGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT