Sequence
atgc intronic sequence ATGC exonic sequence...agaaccctacatctgatctgaattggatcattcggatcttatcctaattcgtctattcttcctaacttttacaacaaactttaacagtttcattttgcagGATGATAAAGATGAGCTTCGGCGATCACCTGGCACTCCTGTTTTCACTGCACCAGAATGTATTTTAG
Basic information
species | Glycine max |
transcript | GLYMA12G07340.4 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07340.4 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os03g50330.1 (Oryza sativa), 3'ss of exon 8
---agaaccctacatctgatctgaattggatcattcggatcttatcctaattcgtctattcttcctaacttttacaacaaactttaacagtttcattttgcagGATGATAAAGATGAGCTTCGGCGATCACCTGGCACTCCTGTTTTCACTGCACCAGAATGTATTTTAG
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ggacggagggagtaagtgtttttaggcaatttcttcgtacaattgtggagtcta---atggcttagtactttactgataaagtgttatgtgattgtattgcagGATGATGATGATCTGCTTTGGAGGTCTCCAGGTACTCCTGTTTTCACTGCACCAGAATGCTGTCAAG
upper sequence: GLYMA12G07340.4 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 9
--------agaaccct-acatctgatctgaattggatcattcggatcttatcctaattcgtctattcttcctaacttttacaacaaactttaacagtttcattttgcagGATGATAAAGATGAGCTTCGGCGATCACCTGGCACTCCTGTTTTCACTGCACCAGAATGTATTTTAG
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ttgtgttcagagtttttaaatttggt----agtggaatacct---tttagttttaaggcgttgaatgcaatt--cttgtgccaccttgttgaaatggtttcttatgcagGATGATAATGATGAGCTCCGCCGTTCTCCTGGCACTCCTGTTTTTACTGCACCAGAGTGCTGTTTAG
upper sequence: GLYMA12G07340.4 (Glycine max), 3'ss of exon 9
lower sequence: EFJ15000 (Selaginella moellendorffii), 3'ss of exon 6
agaaccctacatctgatctgaattggatcattcggatcttatcctaattcgtctattcttcctaacttttacaacaaactttaacagtttcattttgcagGATGATAAAGATGAGCTT---CGGCGATCACCTGGCACTCCTGTTTTCACTGCACCAGAATGTATTTTAG---------
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----------------------------------------gtaccacagagtttgtggtgtggtgttgagatga-aagttttgctttctttcttttgccgcagGGCGATGATGATCTTTTACGTCGATCTCCTGGCACTCCTGTCTTCACAGCACCAGAATGCTGTAAAGGTATTTCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattcgtctattcttcctaacttttacaacaaactttaacagtttcattttgcagGATGATAAAGATGAGCTTCGGCGATCACCTGGCACTCCTGTTTTCACTGCACCAGAATGTATTTTAG
tttcatttt CT-rich tract
taactttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaccctacatctgatctgaattggatcattcggatcttatcctaattcgtctattcttcctaacttttacaacaaactttaacagtttcattttgcagGATGATAAAGATGAGCTTCGGCGATCACCTGGCACTCCTGTTTTCACTGCACCAGAATGTATTTTAG
- - ccctaca