Sequence
atgc intronic sequence ATGC exonic sequence...atataatagttgttaattcttaattaaaggttgaaatatactatgaataagagactctagttattacacaaactaaattttcttttttctttattggtagGTGGCTGGCCATAGGGATCTTCTTGAAGGAGATCCATACTTGAAGCAAAGACTGCGCTTGCGTGATTCTTATATTACTACCCTAAACGTGTGCCAAGCCT
Basic information
species | Glycine max |
transcript | GLYMA06G33380.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 3'ss of exon 9
------atataatagttgttaattctta--attaaaggttgaaatatactatgaa----taagagactctagttattacacaaacta---------aattttcttttttctttat-tggtagGTGGCTGGCCATAGGGATCTTCTTGAAGGAGATCCATACTTGAAGCAAAGACTGCGCTTGCGTGATTCTTATATTACTACCCTAAACGTGTGCCAAGCCT
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gtatgttcactaaaaacttcaaccagtacaattccaacttgtacagtactctgaactcctgattactccttgttatcatacaaaagatagtacaatgattggcttttttttttttacttcagGTTGCTGGCCATAGGGATCTTCTTGAAGGTGACCCCTACCTGAAGCAGCGGCTCCGACTCCGCGACGCCTACATAACCACCCTGAATGTCTGCCAAGCCT
upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 9
atataatagttgttaattcttaattaa----aggttgaaatatactatgaataagagactctagttattacacaaactaaattttcttttttctttattggtagGTGGCTGGCCATAGGGATCTTCTTGAAGGAGATCCATACTTGAAGCAAAGACTGCGCTTGCGTGATTCTTATATTACTACCCTAAACGTGTGCCAAGCCT
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-ctgaagaatttcagaacctgaattgtttccaactcatgagagtttcaaaatgatagattg-agtaacttcc--aacttgtttttttttcctctgtattggtagATTGCTGGACACAAGGACCTTCTTGAAGGGGATCCCTACTTGAAGCAAAGACTCCGCCTGCGTGACTCCTACATCACAACCCTAAATGTCTGCCAAGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataagagactctagttattacacaaactaaattttcttttttctttattggtagGTGGCTGGCCATAGGGATCTTCTTGAAGGAGATCCATACTTGAAGCAAAGACTGCGCTTGCGTGATTCTTATATTACTACCCTAAACGTGTGCCAAGCCT
aactaaa putative branch site (score: 2)
ttttcttttttcttta CT-rich tract
ttattacacaaactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atataatagttgttaattcttaattaaaggttgaaatatactatgaataagagactctagttattacacaaactaaattttcttttttctttattggtagGTGGCTGGCCATAGGGATCTTCTTGAAGGAGATCCATACTTGAAGCAAAGACTGCGCTTGCGTGATTCTTATATTACTACCCTAAACGTGTGCCAAGCCT
- - - - - - - - - - - - - - - - - - - - ctatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaaac