Sequence
atgc intronic sequence ATGC exonic sequencegtatggatctggtgcaagtttagttttcggctttggttttgtgtgtttctgtttttgtcttctgcgtggtggtgggttttgaggtttgaaatgtgggtttttttttttgcagCGGTTTCGAGCAGGTCGATGATGAAGTTCGAGAGTGGGTACAATGTGGAGACTGTGTTTGATGGAAGCAAGCTTGGGATCGAGCCTTATGCTGTGGAGGT
Basic information
species | Glycine max |
transcript | GLYMA18G18550.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G18550.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g49770.1 (Oryza sativa), 3'ss of exon 2
gtatggatctggtgcaagtttagttttcggctttggttttgtgtgtttctgtttttgtcttctgcgtggtggtgggttttg--aggtttgaaatgtgggtttttttttttgcagCGGTTTCGAGCAGGTCGATGATGAAGTTCGAGAGTGGGTACAATGTGGAGACTGTGTTTGATGGAAGCAAGCTTGGGATCGAGCCTTATGCTGTGGAGGT
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-------------------gtgattgctggaatctttctcgtgctcgtggcgtttctccccctgggttttggttgtttgaagcaatttttcgctctctgattgcgatggagcagGAAGCGGAGGGAAGTCGATGGTGAAGTACGAGGGCGGGTACACCGTGGAGACGGTCTTCGACGGGAGCAAGCTGGGGATCGAGCCCTACGCGGTGGAGGT
upper sequence: GLYMA18G18550.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os06g15820.1 (Oryza sativa), 3'ss of exon 2
gta-tggatctggtgcaagttt----agttttcggctttggttttgtgtgtttctgtttttgtcttctgcgtggtggtgggttttgaggtttgaaatgtgggtttttttttttgcagCGGTTTCGAGCAGGTCGATGATGAAGTTCGAGAGTGGGTACAATGTGGAGACTGTGTTTGATGGAAGCAAGCTTGGGATCGAGCCTTATGCTGTGGAGGT
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gtaattcgtctgctcctcctccttggagaaaagaaatttcagttcttgtgtgtgcgcttcttccggtttcttgaccggattattgacggtGGTCGGCGGCGGCGGCAGGGTCGGCGGCGG---CGGGGAGGTCGATGGTGAAGTACGAGGGCGGGTACGCGGTGGAGACGGTGTTCGACGGCAGCAAGCTGGGGATCGAGCCGCACGACGT------
upper sequence: GLYMA18G18550.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G70280.2 (Arabidopsis thaliana), 3'ss of exon 2
gtatggatctggtgcaagtttagttttcggctttggttttgtgtgtttctgtttttgtcttctgcgtggtggtgggttttgaggtttgaaatgtgggtttttttttttg---cagCGGTTTCGAGCAGGTCGATGATGAAGTTCGAGAGTGGGTACAATGTGGAGACTGTGTTTGATGGAAGCAAGCTTGGGATCGAGCCTTATGCTGTGGAGGT
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------------------------gttcgaatcctcttccat---tttctgatcataaagtttgctttttaatctttttctaacgaataaaggtttctctttttttatgaatcagCTATTGCAACGAGATCGATGGTGAAATTCGAAAATGGGTATAGTGTAGAGACTGTGTTTGATGGAAGTAAACTTGGTATTGAACCGTATTCTATTGAAGT
upper sequence: GLYMA18G18550.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 2
---------------------------gtatggatctggtgcaagtttagttttcggctttggttttgtgtgtttctgtttttgtcttctgcgtggtggtgggttttgaggtttga------aatgtgggtttt------tttttttgcagCGGTTTCGAGCAGGTCGATGATGAAGTTCGAGAGTGGGTACAATGTGGAGACTGTGTTTGATGGAAGCAAGCTTGGGATCGAGCCTTATGCTGTGGAGGT
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gtagagatctttgatactacacgcattggctgcttccttcccttttttttttttttttttggattttggaatttccttttcctgggtattgggtattgggaattctggagtgttgatgctacggtgcggttcttgggatttttgtttgcagCGATTTCTAGCCGGTCGATGATGAAGTTTGAGAGTGGGTACACAGTTGAGACCGTGTTTGATGGAAGCAAGCTTGGAATTGAACCCTACTCAATTGAGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttctgcgtggtggtgggttttgaggtttgaaatgtgggtttttttttttgcagCGGTTTCGAGCAGGTCGATGATGAAGTTCGAGAGTGGGTACAATGTGGAGACTGTGTTTGATGGAAGCAAGCTTGGGATCGAGCCTTATGCTGTGGAGGT
tttttttttttgc CT-rich tract
tttttttttttgca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggatctggtgcaagtttagttttcggctttggttttgtgtgtttctgtttttgtcttctgcgtggtggtgggttttgaggtttgaaatgtgggtttttttttttgcagCGGTTTCGAGCAGGTCGATGATGAAGTTCGAGAGTGGGTACAATGTGGAGACTGTGTTTGATGGAAGCAAGCTTGGGATCGAGCCTTATGCTGTGGAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG