Sequence
atgc intronic sequence ATGC exonic sequence...ttttcctattttcactatatgtatatttatttatgggaaaattgtttcagttgttgatattttttgcatgcattgataagtagcattgttcctattttagGTTTTACATAGTCAATGCCATCGGTTTCGGGCTTTAGTACTCCTTGGAAGGTTCCTTGATATGGGGCCATGGGCTGTAGATCTG
Basic information
species | Glycine max |
transcript | GLYMA18G44210.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 10
ttttcctattttcactatatgtatatttatttatgggaaaattgtttcagtt--gttgatattttttgcatgcattg-ataagtagcattgttcctattttagGTTTTACATAGTCAATGCCATCGGTTTCGGGCTTTAGTACTCCTTGGAAGGTTCCTTGATATGGGGCCATGGGCTGTAGATCTG
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atggcttaggaacattctttg---gcttccttcaggacgttctatcataattttgtttgcatattgccattttagcgtatttatagaatctggtttgtttcagGTGTTACTTAGCCAGTGCCATCGGTTTCGTGCTCTTGTACTTCTTGGAAGATTTCTTGATATGGGTTCATGGGCTGTGGATCTG
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 3'ss of exon 10
ttttcctattttcactatatgtatatttatttatgggaaaattgtttcagttgtt-gatattttttgcatgcattgataagtagcattgtt-cctattttagGTTTTACATAGTCAATGCCATCGGTTTCGGGCTTTAGTACTCCTTGGAAGGTTCCTTGATATGGGGCCATGGGCTGTAGATCTG
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--tgtgtatttcttcctccccttgaaaaaagaaaaagaaaatcttttattttttccgcttttctttacatagaataacggataatccaactgtctgtcttagGTTTTACTGAGTCAATGCCATCGATTTCGAGCGCTGGTGCTTCTTGGAAGATTCCTTGATATGGGACCATGGGCTGTAGATCTG
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ28980 (Selaginella moellendorffii), 3'ss of exon 10
ttttcctattttcactatatgtatatttatttatgggaaaattgtttcagttgttgatattttttgcatgcattgataagtagcattgttcctattttagGTTTTACATAGTCAATGCCATCGGTTTCGGGCTTTAGTACTCCTTGGAAGGTTCCTTGATATGGGGCCATGGGCTGTAGATCTG
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-------------------------------------------------gtccacgttgcttatcctaagcctt---------ttttgtgttttcaacagGTTCTTTTAAGTCAATCTCATCGTTTTCGGGCTTTGGTACTTTTAGGAAGGTTCTTGGATATGGGGGCATGGGCTGTGAACCTG
upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ13684 (Selaginella moellendorffii), 3'ss of exon 9
ttttcctattttcactatatgtatatttatttatgggaaaattgtttcagttgttgatattttttgcatgcattgataagtagcattgttcctattttagGTTTTACATAGTCAATGCCATCGGTTTCGGGCTTTAGTACTCCTTGGAAGGTTCCTTGATATGGGGCCATGGGCTGTAGATCTG
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--------------------------------------------------------------gttgcttgtcct---aagcctttttgtgttttcaacagGTTCTTTTAAGTCAATCTCATCGTTTTCGGGCTTTGGTACTTTTAGGAAGGTTCTTGGATATGGGGGCATGGGCTGTGAACCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcagttgttgatattttttgcatgcattgataagtagcattgttcctattttagGTTTTACATAGTCAATGCCATCGGTTTCGGGCTTTAGTACTCCTTGGAAGGTTCCTTGATATGGGGCCATGGGCTGTAGATCTG
cattgat putative branch site (score: 4)
ttcctatttt putative PPT
ttgttgatatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcctattttcactatatgtatatttatttatgggaaaattgtttcagttgttgatattttttgcatgcattgataagtagcattgttcctattttagGTTTTACATAGTCAATGCCATCGGTTTCGGGCTTTAGTACTCCTTGGAAGGTTCCTTGATATGGGGCCATGGGCTGTAGATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - -gttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgca