Sequence
atgc intronic sequence ATGC exonic sequencegtaataatactaacgatcttgaggtgtttcagtcatctgtgtagtaagcggacttgtcttggtgttcatatgctgttttctgttttcttttcaatagAACCGAGAAGGATATCACACCAATGGGAGGATTTCCCCACTATGGGATAGTGAAGGAAGATTATTTGATGATCAAGGGATGTTGCGTGGGGCCTAAGAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G61580.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G61580.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G132968_T02 (Zea mays), 3'ss of exon 5
gtaataatactaacgatcttgaggtgtttcagtcatctgtgtagtaagcggacttgtcttggtgttcatatgctgttttctgttttcttttcaatagAACCGAGAAGGATATCACACCAATGGGAGGATTTCCCCACTATGGGATAGTGAAGGAAGATTATTTGATGATCAAGGGATGTTGCGTGGGGCCTAAGAAA
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------gtactatt--tctgagcttcttgtactaacttgcacaatctgtttacctttgttgctcttgttg-gttacggattgctgccattt--gcagGACCGAGAAGGACATCACTCCCATGGGTGGCTTCCCCCACTATGGTATCGTGAAGGGTGACTACCTGATGATCAAGGGATGCTGTGTGGGTCCAAAGAAG
upper sequence: AT1G61580.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G135727_T01 (Zea mays), 3'ss of exon 5
gtaataatactaacgatcttgaggtgtttcagtcatctgtgtagtaagcggacttgtcttggtgttcatatgctgttttctgttttcttttcaatagAACCGAGAAGGATATCACACCAATGGGAGGATTTCCCCACTATGGGATAGTGAAGGAAGATTATTTGATGATCAAGGGATGTTGCGTGGGGCCTAAGAAA
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------gtactatt--tctgagcttcttgtactaacttgcacaatctgtttacctttgttgctcttgttg-gttacgaattgctgccattt--gcagGACCGAGAAGGACATCACTCCCATGGGTGGCTTCCCCCACTATGGTATCGTGAAGGGTGACTACCTGATGATCAAGGGATGCTGTGTGGGTCCAAAGAAG
upper sequence: AT1G61580.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv12s0035g01020.t01 (Vitis vinifera), 3'ss of exon 4
-gtaataatactaacgatcttgaggtgtttcagtcatctgtgtagtaagcggacttgtcttggtgttcatatgctgtttt--ctgttttcttttcaatagAACCGAGAAGGATATCACACCAATGGGAGGATTTCCCCACTATGGGATAGTGAAGGAAGATTATTTGATGATCAAGGGATGTTGCGTGGGGCCTAAGAAA
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aacattattatgtccacactagggctttataaggcaaaacttttgaacagatccttaaaccaagttacgaatttaagtgagactgatttgtggtaattagGACCGAGAAGGATATTACCCCAATGGGAGGATTCCCACATTATGGGGTGGTGAAAGACGATTACCTGCTGATCAAAGGATGTTGCGTGGGACCAAAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaagcggacttgtcttggtgttcatatgctgttttctgttttcttttcaatagAACCGAGAAGGATATCACACCAATGGGAGGATTTCCCCACTATGGGATAGTGAAGGAAGATTATTTGATGATCAAGGGATGTTGCGTGGGGCCTAAGAAA
tgctgttttctgtttt CT-rich tract
ttttcttttcaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataatactaacgatcttgaggtgtttcagtcatctgtgtagtaagcggacttgtcttggtgttcatatgctgttttctgttttcttttcaatagAACCGAGAAGGATATCACACCAATGGGAGGATTTCCCCACTATGGGATAGTGAAGGAAGATTATTTGATGATCAAGGGATGTTGCGTGGGGCCTAAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA