Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttcttcgtctatgttctttgcatcactatattttttttttgggatgtttactgaaccctttgtctttaccctgccagAATGAAACCTTGATAGCCATTAAAGCTCCTCATGGAACCACTTTGGAGGTCCCTGATCCCGACGAG
Basic information
species | Glycine max |
transcript | GLYMA12G09860.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G09860.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0080g01110.t01 (Vitis vinifera), 3'ss of exon 9
----------------------------------------gtgagtttc---ttcgtctatgttctttgcatcactatattttttttttg--ggatgtttactgaaccct--ttgtctttaccctgccagAATGAAACCTTGATAGCCATTAAAGCTCCTCATGGAACCACTTTGGAGGTCCCTGATCCCGACGAG
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gtttgtttcttctttgctttgatttggtggtttacagtaattgagattagaatgttttcaaatcccaagaatttgctcgtttctgtttggctgattgttaacgggagtctgtttgtattgttcccaccagAAAGAAACCTTGATAGCAATTAAAGCCCCACATGGCACCACACTAGAAGTCCCAGATCCTGATGAG
upper sequence: GLYMA12G09860.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ05155 (Selaginella moellendorffii), 3'ss of exon 8
gtgagtttcttcgtctatgttctttgcatcactatattttttttttgggatgtttactgaaccctttgtctttaccctgccagAATGAAACCTTGATAGCCATTAAAGCTCCTCATGGAACCACTTTGGAGGTCCCTGATCCCGACGAG
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------------gtaagtaagcgttgc-tcggtcctttctagccctgatatattagttttaacgcttgctctgg--ctggcagAATGAAACCTTGATTGCGATCAAAGCTCCCCATGGAACTACTCTAGAAGTTCCTGATCCGGACGAG
upper sequence: GLYMA12G09860.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ05692 (Selaginella moellendorffii), 3'ss of exon 8
gtgagtttcttcgtctatgttctttgcatcactatattttttttttgggatgtttactgaaccctttgtctttaccctgccagAATGAAACCTTGATAGCCATTAAAGCTCCTCATGGAACCACTTTGGAGGTCCCTGATCCCGACGAG
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------------gtaagtaagcgttgc-tcggtcctttctaagcctgatatattagttttaacgcttgctctgg--ctggcagAATGAAACCTTGATTGCGATCAAAGCTCCCCATGGAACTACTCTAGAAGTTCCTGATCCGGACGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcactatattttttttttgggatgtttactgaaccctttgtctttaccctgccagAATGAAACCTTGATAGCCATTAAAGCTCCTCATGGAACCACTTTGGAGGTCCCTGATCCCGACGAG
ccctttgtctttaccc CT-rich tract
atatttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttcttcgtctatgttctttgcatcactatattttttttttgggatgtttactgaaccctttgtctttaccctgccagAATGAAACCTTGATAGCCATTAAAGCTCCTCATGGAACCACTTTGGAGGTCCCTGATCCCGACGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG