Sequence
atgc intronic sequence ATGC exonic sequencegtgagcctgttatatcatgcattgcaaatactgcttctctttctctatacagtgtgtccatgtattcatctgttaaacttaaatctattcttattcagATTACTCCGGCAAGGGATGGGAAACCAGTTCTGATTGAGCTTATTGATGCCAAAACCAAGGAACCTAAGGATACTTTGGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G16950.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 6
gtgagcctgttatatcatgcattgcaaatactgctt-ctctttctctatacagtgtgtccatgtattcatctgttaaacttaaatctattcttattcagATTACTCCGGCAAGGGATGGGAAACCAGTTCTGATTGAGCTTATTGATGCCAAAACCAAGGAACCTAAGGATACTTTGGAG
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gttcacctttgctctagcttcctcaaagtattccagacttttttttgacatagttgaataatctgtatgttgaatggtct---attgatttttcaccagATTACTCCTGCAAAGGATGGAAAACCTGTGCTCATCGAGCTTATTGATGCAAAGACAAAGGAGCACAAAGAAACCCTTGAG
upper sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA17G03560.1 (Glycine max), 3'ss of exon 6
gtgagcctgttatatcatgcattgcaaatactgcttctctttctctatacagtgtgtccatgtattcatctgttaaacttaaatctattcttattcagATTACTCCGGCAAGGGATGGGAAACCAGTTCTGATTGAGCTTATTGATGCCAAAACCAAGGAACCTAAGGATACTTTGGAG
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--------gtaacaacatc--ttgtaatttcttgatataatttt------agttggctactatgacatgctacacagtcctcatgt-ttgttgtatagATCACGCCTGCAAGGGATGGAAAACCTGTCTTGATTGAACTTATTGATGCGAAAACCAAGGAGCCGAAAGACACGCTGGAG
upper sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 6
gtgagcctgttatatcatgcattgcaaatactgcttctctttctcta-tacagtgtgtccatgtattcatctgttaaacttaaatctattcttattcagATTACTCCGGCAAGGGATGGGAAACCAGTTCTGATTGAGCTTATTGATGCCAAAACCAAGGAACCTAAGGATACTTTGGAG
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gtaacaatatcttgtaatttcttg-atataattttattatttggctactatgacatgctacagtcctcatgt----------------ttattgtatagATCACGCCCGCAAGGGATGGGAAACCTGTCTTGATTGAACTTATTGATGCAAAAACAAAGGAGCCAAAAGACACTCTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctatacagtgtgtccatgtattcatctgttaaacttaaatctattcttattcagATTACTCCGGCAAGGGATGGGAAACCAGTTCTGATTGAGCTTATTGATGCCAAAACCAAGGAACCTAAGGATACTTTGGAG
tctattctt CT-rich tract
ttaaacttaaatctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcctgttatatcatgcattgcaaatactgcttctctttctctatacagtgtgtccatgtattcatctgttaaacttaaatctattcttattcagATTACTCCGGCAAGGGATGGGAAACCAGTTCTGATTGAGCTTATTGATGCCAAAACCAAGGAACCTAAGGATACTTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG