Sequence
atgc intronic sequence ATGC exonic sequencegtgctagttttccctattaaataatttattctattactcaggtttgttataggtggattattaattaatatttcaacccaaccttctgtattgcattctactgtatgataatctggggaggattctacaagctgagatgcctttttctaatgttagGTGGCAATGCAGATTGCTAGGGAGGTGACAACAGCTTGCCGCCTTGGTGTCGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0074g00240.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G34520.1 (Glycine max), 3'ss of exon 4
gtgctagttttccctattaaataatttattctattactcaggtttgttataggtggattattaattaatatttcaacccaaccttctgtattgcattctactgtatgataatctggggaggattctacaagctgagatgcctttttctaatgttagGTGGCAATGCAGATTGCTAGGGAGGTGACAACAGCTTGCCGCCTTGGTGTCGAG
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gtgccagttttgttc---------ttgattctattatcca--ttcgtttgatatctgtttttgag-gatatttgaatg-aatatattgtgcttcctactcttagagacttaattggaaa-----ctgcaa-ttcaactacttccttccatcattagGTGGCAATGCAGATTGCTAGGGAAGTGGCAACAGCTTGCCGCCTTGGGGTGGAG
upper sequence: Vv13s0074g00240.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G33030.1 (Glycine max), 3'ss of exon 2
gtgctagttttccctattaaataatttattctattactcaggtttgttataggtggattattaattaatatttcaacccaaccttctgtattgcattctactgtatgataatctggggaggattctacaagctgagatgcctttttctaatgttagGTGGCAATGCAGATTGCTAGGGAGGTGACAACAGCTTGCCGCCTTGGTGTCGAG
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gtgcaattgttgttc---------ttgattctattatccattcatattatatt---gtttttggaggatatttgaatgaa----taggttgtgcttcctactcttagaga--cttaattggaaactgcaa-ttcaactgtttgcttccatcattagGTGGCAATGCAGATTGCTAGGGAAGTGGCAACAACTTGCCGCCTTGGGGTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatgataatctggggaggattctacaagctgagatgcctttttctaatgttagGTGGCAATGCAGATTGCTAGGGAGGTGACAACAGCTTGCCGCCTTGGTGTCGAG
ttctaat putative branch site (score: 2)
tgcctttttct CT-rich tract
tttttctaatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctagttttccctattaaataatttattctattactcaggtttgttataggtggattattaattaatatttcaacccaaccttctgtattgcattctactgtatgataatctggggaggattctacaagctgagatgcctttttctaatgttagGTGGCAATGCAGATTGCTAGGGAGGTGACAACAGCTTGCCGCCTTGGTGTCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT