Sequence
atgc intronic sequence ATGC exonic sequencegtagttctactattctaccttttttttttataacttttctctggcaagttgtgcagtggaaggccattatgttgttgcagctgatagaaaatcacatcatgcttccgttcttttccagGTTGTGATGAGCCAAAATGGCTACACTCATGCAGTCGATATCTGGAGTTTGGGTTGTACTATTCTGGAAATGGCAACATCAAAGCCACCTTGGAGCCAGT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G53570.5 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G53570.5 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G15870.1 (Glycine max), 3'ss of exon 8
gtagttctactattctaccttttttttttataacttttctctggcaagttgtgcagtggaaggccattatgttgttgcagctgatagaaaatcacatcatgcttccgttcttttccagGTTGTGATGAGCCAAAATGGCTACACTCATGCAGTCGATATCTGGAGTTTGGGTTGTACTATTCTGGAAATGGCAACATCAAAGCCACCTTGGAGCCAGT
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---gtaaagtattttttcctttctttttcacatcttgtaatt----acttttgaacaagaacatccttatctc-ttccactgtaagttttaatgtatcccgacgtt-tgctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGTTTGGGATGCACAATTCTTGAAATGGCAACATCAAAGCCTCCTTGGAATCAGT
upper sequence: AT1G53570.5 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA04G39110.1 (Glycine max), 3'ss of exon 7
gtagttctactattctaccttttttttttataacttttctctggcaagttgtgcagtggaaggccattatgttgttgcagctgatagaaaatcacatcatgcttccgttcttttccagGTTGTGATGAGCCAAAATGGCTACACTCATGCAGTCGATATCTGGAGTTTGGGTTGTACTATTCTGGAAATGGCAACATCAAAGCCACCTTGGAGCCAGT
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----gtaaagtattttctcctttcttttcacatcttgtaatt----acttctgaacaaaaatatccgtatctc-ttccactgtaagttgtaatgtatcctgacttt-tgctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGCTTGGGATGCACAATTCTTGAAATGGCAACATCAAAGCCTCCTTGGAATCAGT
upper sequence: AT1G53570.5 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------------------------------------------------------------gtagttctactattctaccttttttttttataacttttctctggcaagttgtgcagtggaaggccattatgttgttgcagctgatagaaaatcacatcatgcttccgttcttttccagGTTGTGATGAGCCAAAATGGCTACACTCATGCAGTCGATATCTGGAGTTTGGGTTGTACTATTCTGGAAATGGCAACATCAAAGCCACCTTGGAGCCAGT
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gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccattatgttgttgcagctgatagaaaatcacatcatgcttccgttcttttccagGTTGTGATGAGCCAAAATGGCTACACTCATGCAGTCGATATCTGGAGTTTGGGTTGTACTATTCTGGAAATGGCAACATCAAAGCCACCTTGGAGCCAGT
agctgat putative branch site (score: 4)
tgcttccgttcttttc putative PPT
atagaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagttctactattctaccttttttttttataacttttctctggcaagttgtgcagtggaaggccattatgttgttgcagctgatagaaaatcacatcatgcttccgttcttttccagGTTGTGATGAGCCAAAATGGCTACACTCATGCAGTCGATATCTGGAGTTTGGGTTGTACTATTCTGGAAATGGCAACATCAAAGCCACCTTGGAGCCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG