Sequence
atgc intronic sequence ATGC exonic sequence...tgctcttgtattctttggtatgtctctcttgctccattcatctcttatgtttacacttcttgtttaatgtggggcttgtggctgctacccatgattgcagGTTATGATGAATGCCATGAATGTTCCTTCCAAAAGGAGTACTTTAGAAAGGAAACTTGACAAACTTATACTGGCTCTTTTCGGTGGCCTGTTCCTCATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G326677_T01 (Zea mays), 3'ss of exon 10
tgctcttgtattctttggtatgtctctcttgctccattc--atctcttatgtttacacttcttgtttaatgtggggcttgtggctgctacccatgattgcagGTTATGATGAATGCCATGAATGTTCCTTCCAAAAGGAGTACTTTAGAAAGGAAACTTGACAAACTTATACTGGCTCTTTTCGGTGGCCTGTTCCTCATGT
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-agtatgggaatcttta-tattcccaatctattcgatgtggagatttcaacttttgattctcttcaactttcaaaatttattcatgtagaaaattgttgcagGTTATGATGAATTCCATGAATGTTCCCTCAAAAAGAAGTACATTGGAAAAAAAGCTAGACAAGCTTATCCTTGCTCTTTTTGCAACCCTCTTTACAATGT
upper sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G16990.1 (Glycine max), 3'ss of exon 2
--------------tgctcttgtattctttgg-tatgtctctcttgctccattcatctcttatgtttacacttc--ttgtttaatgtgg--ggcttgtggctgctacccatga--ttgcagGTTATGATGAATGCCATGAATGTTCCTTCCAAAAGGAGTACTTTAGAAAGGAAACTTGACAAACTTATACTGGCTCTTTTCGGTGGCCTGTTCCTCATGT
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acttggtcttattatatatttgcctttccaggatatgttgtttactctcttgttgctttgtattttcctactgtgattgttcatggatactgttttacagATATTTGTAATAACATTGCAGGTGATGATGAATACAATGAATGTTCCTTCCAAAAGAAGTACATTGGAGAGGAAACTTGACAAGCTCATACTAACTCTAT---------------------
upper sequence: Vv00s0189g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G40530.1 (Glycine max), 3'ss of exon 9
--tgctcttgtattctttggtatgtctctcttgctccattcatctcttatgtttacacttcttgtttaatgtggggcttgtggctgctacccatgattgcagGTTATGATGAATGCCATGAATGTTCCTTCCAAAAGGAGTACTTTAGAAAGGAAACTTGACAAACTTATACTGGCTCTTTTCGGTGGCCTGTTCCTCATGT
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gccttttcaggatattttgtttaccctcttgttgctttttattttcctactgtgattgttcatggatactgttttacagatatttgaaat--aacattgcagGTGATGATGAATACAATGAATGTTCCTTCCAAAAGAAGTACATTGGAGAGGAAGCTTGACAAGCTCATACTAACTCTATTTGCAACTCTCTTCGTGATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgtttacacttcttgtttaatgtggggcttgtggctgctacccatgattgcagGTTATGATGAATGCCATGAATGTTCCTTCCAAAAGGAGTACTTTAGAAAGGAAACTTGACAAACTTATACTGGCTCTTTTCGGTGGCCTGTTCCTCATGT
gtttaat putative branch site (score: 4)
ttgtttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctcttgtattctttggtatgtctctcttgctccattcatctcttatgtttacacttcttgtttaatgtggggcttgtggctgctacccatgattgcagGTTATGATGAATGCCATGAATGTTCCTTCCAAAAGGAGTACTTTAGAAAGGAAACTTGACAAACTTATACTGGCTCTTTTCGGTGGCCTGTTCCTCATGT
-gctcttg
- - - - - - - - -gtatgtc
- - - - - - - - - - - - -ctcttgc
- - - - - - - - - - - - - - - - -ccattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctaccc