Sequence
atgc intronic sequence ATGC exonic sequencetatgttcaaatgtatatctaggttctttgtataatttaatatatattacggattttcctacatactaaggaatgcttaaatttcatgttttcctttatcagaGTTTGAAGACGACCCTGATCTTTATGTGCTTAAGCCTATCAAGTATGTAGGCATTGAAGTTTGGCAGG
Basic information
species | Glycine max |
transcript | GLYMA18G47930.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47930.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G028516_T01 (Zea mays), 3'ss of exon 8
tatgttcaaatgtatatc-taggttctttgtataatttaatatatattacggattttcctacatactaaggaatgcttaaatttcatgttttcctttatcagaGTTTGAAGACGACCCTGATCTTTATGTGCTTAAGCCTATCAAGTATGTAGGCATTGAAGTTTGGCAGG
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-gtaagcaaataaaaatcctaactgctgattttgaatgaaaccacacttaagcttt----aaagatcaggcgctgtcaac------tgtattatttttgcagAGTTTGAGGATGATCCAGATCTTTATGTGCTGAAGCCTTTGAAGTATATTGGAATTGAAGTTTGGCAG-
upper sequence: GLYMA18G47930.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G318065_T01 (Zea mays), 3'ss of exon 1
tatgttcaaatgtatatctaggttctttgtataatttaatat-atattacggattttcctacatactaaggaatgcttaaatttca-tgttttcctttatcagaGTTTGAAGACGACCCTGATCTTTATGTGCTTAAGCCTATCAAGTATGTAGGCATTGAAGTTTGGCAGG
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---------gtatgcaactgtattgtttttgcaggctgattttgaattaaaccacactttaagctttaaagatcaggcgctgccaactgtattgtttttgcagAGTTTGAGGATGATCCAGATCTTTATGTGCTGAAGCCTTTGAAGTATATTGGAATTGAAGTTTGGCAG-
upper sequence: GLYMA18G47930.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G368807_T01 (Zea mays), 3'ss of exon 1
tatgttcaaatgtatatct---aggttctttgtataatttaatatatattacggattttcctacatactaaggaatgcttaaatttca-tgttttcctttatcagaGTTTGAAGACGACCCTGATCTTTATGTGCTTAAGCCTATCAAGTATGTAGGCATTGAAGTTTGGCAGG
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-----ccaggggcggatctccgaagaggtgaagacgactgattttgaattaaaccacactttaagctttaaagatcaggcgctgtcaactgtattgtttttgcagAGTTTGAAGATGATCTAGATCTTTATGTGCTGAAGCCTTTGAAGTACATTGGAATTGAAGTTTGGCAG-
upper sequence: GLYMA18G47930.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv04s0023g00830.t01 (Vitis vinifera), 3'ss of exon 10
tatgttcaaatgtatatctaggttctttgtataatttaatatatattacggattttcctacatactaaggaatgctta-aatttcatgttttcctttatcagaGTTTGAAGACGACCCTGATCTTTATGTGCTTAAGCCTATCAAGTATGTAGGCATTGAAGTTTGGCAGG
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-------------gtatggaaatgatttgcaaaata-aatttggactgttgatct--------ggaacagcttgcttataagtgggtttttctcctctccagAATTTGAAGATGACCCTGATCTTTATGTACTAAAGCCAATTAAATATGTGGGCATTGAAGTGTGGCAG- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acggattttcctacatactaaggaatgcttaaatttcatgttttcctttatcagaGTTTGAAGACGACCCTGATCTTTATGTGCTTAAGCCTATCAAGTATGTAGGCATTGAAGTTTGGCAGG
tttcatgttttccttt CT-rich tract
ttaaatttcatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgttcaaatgtatatctaggttctttgtataatttaatatatattacggattttcctacatactaaggaatgcttaaatttcatgttttcctttatcagaGTTTGAAGACGACCCTGATCTTTATGTGCTTAAGCCTATCAAGTATGTAGGCATTGAAGTTTGGCAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG