Sequence
atgc intronic sequence ATGC exonic sequencegtaagtccttgatttggtttaatacattcttcgccagttattggtgtcaaaatatttgaatattattctcctctgaattttgatttccctttacttctgtgatctttatagtaaaaatataatgtgctgattctgttgtgtagGTATTATTCTCACAACAATGAGTACATTGAGATATGCCGTAGCTACAAGGCGATATATGATATCCCTTCTGTAAAGGAAAACCCAGAACAATGGATTCCA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G64760.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G32030.2 (Glycine max), 3'ss of exon 6
gtaagtccttgatttggtttaatacattcttcgccagttattggtgtcaaaatatttgaatattattctcctctgaattttgatttccctttacttctgtgatctttatagtaaaaatataatgtgctgattctgttgtgtagGTATTATTCTCACAACAATGAGTACATTGAGATATGCCGTAGCTACAAGGCGATATATGATATCCCTTCTGTAAAGGAAAACCCAGAACAATGGATTCCA
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-------------------------------tgtttgttttttgtacctttatgct-acatattttttaactacttatttta---tgctgctgattttaaaatctttgt--------tgtcttatgctgctttctgtttcaagGTATTATTCCCATAACAATGATTATCTTGAAATTTGCCGTTGCTACAAGGCAATATATGAGATTCCATCTGTCAAAGAAGACCCTGCCAAGTGGATTCCA
upper sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtccttgatttggtttaatacattcttcgccagttattggtgtcaaaatatttgaatattattctcctctgaattttgatttccctttacttctgtgatctttatagtaaaaatataatgtgctgattctg--ttgtgtagGTATTATTCTCACAACAATGAGTACATTGAGATATGCCGTAGCTACAAGGCGATATATGATATCCCTTCTGTAAAGGAAAACCCAGAACAATGGATTCCA
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-------------------------------------ctttgcatctaagatttgttgcataatggcctatattgagtccttgttt----atatttttgt----tataccaaatagatgtcatttggtttttcctacttgtgtagGTATCACTCCCACAGCAATGATTACCTTGAAATTTGTCGTAGCTATAAGGCGATATATGAAATCCCATCTGTCAGAGAAGATCCAGCTCAGTGGATACCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttacttctgtgatctttatagtaaaaatataatgtgctgattctgttgtgtagGTATTATTCTCACAACAATGAGTACATTGAGATATGCCGTAGCTACAAGGCGATATATGATATCCCTTCTGTAAAGGAAAACCCAGAACAATGGATTCCA
tgctgat putative branch site (score: 3)
ttctgtt CT-rich tract
tgatctttatagtaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtccttgatttggtttaatacattcttcgccagttattggtgtcaaaatatttgaatattattctcctctgaattttgatttccctttacttctgtgatctttatagtaaaaatataatgtgctgattctgttgtgtagGTATTATTCTCACAACAATGAGTACATTGAGATATGCCGTAGCTACAAGGCGATATATGATATCCCTTCTGTAAAGGAAAACCCAGAACAATGGATTCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA