Sequence
atgc intronic sequence ATGC exonic sequencegtaaatttgccttttgatggattttttcattttgcaactaattttttttagagcaaaaaccttgtaaattgcaaaaaaagaaacaaggtttttgcctcttttttttgcaatttagaaggttttttcccttttcaagtttttttcatgtttcaaatgttgagtgttgttctttcgttttgtttttgtgtgtgtgtgttcagTTGGTGGATAAGGATCCGGAGAGAGCGATTCCGCTGTTCTGGGCAGCCATTAATGCGGGAGATAGAGTGGACAGTGCTTTGAAAGATATGGCTATTGTTA
Basic information
species | Glycine max |
transcript | GLYMA02G05170.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G05170.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G51280.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaaatttgccttttgatggattttttcattttgcaactaattttttttagagcaaaaaccttgtaaattgcaaaaaaagaaacaaggtttttgcctcttttttttgcaatttagaaggttttttcccttttcaagtttttttcatgtttcaaatgttgagtgttgttctttcgttttgtttttgtgtgtgtgtgttcagTTGGTGGATAAGGATCCGGAGAGAGCGATTCCGCTGTTCTGGGCAGCCATTAATGCGGGAGATAGAGTGGACAGTGCTTTGAAAGATATGGCTATTGTTA
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----------------------------------------------------------------------------------------------------------gtgattt----gattatatcccttctatagatctgaatttgtgtttgat-ttgatttttgttctgtc-tctgattgttgt-tttatg-gatcagTTAGTGGAGAAGGATCCAGAGAGAGCAATTCCTCTGTTTTGGAAGGCTATTAATGCTGGAGATAGAGTGGACAGTGCTTTGAAAGACATGGCTATTGTGA
upper sequence: GLYMA02G05170.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0023g03740.t01 (Vitis vinifera), 3'ss of exon 1
gtaaatttgccttttgatggattttttcattttgcaactaattttttttagagcaaaaaccttgtaaattgcaaaaaaagaaacaaggtttttgcctcttttttttgcaatttagaaggttttttcccttttcaagtttttttcatgtttcaaatg-ttgagtgttgttctttcgttttgtttttgtgtgtgtgtgt-tcagTTGGTGGATAAGGATCCGGAGAGAGCGATTCCGCTGTTCTGGGCAGCCATTAATGCGGGAGATAGAGTGGACAGTGCTTTGAAAGATATGGCTATTGTTA
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-----------------------------------------------------------------------------------------gtaagcttccgttctgggtaatcttgaaa-tttgccaacaaaccgaggtttcttc---ttttgcgtgattgatctctgtttgatgggtttgattatgacttttgttgcatcagTTGGTTGACAAGGACCCGGAAAAGGCAATCCCGCTATTTTGGGCCGCCATTAATGCTGGAGATCGAGTGGATAGTGCGCTCAAGGACATGGCCATTGTGA
upper sequence: GLYMA02G05170.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0023g03720.t01 (Vitis vinifera), 3'ss of exon 1
gtaaatttgccttttgatggattttttcattttgcaactaattttttttagagcaaaaaccttgtaaattgcaaaaaaagaaacaaggtttttgcctcttttttttgcaatttagaaggttttttcccttttcaagtttttttcatgtttcaaatg-ttgagtgttgttctttcgttttgtttttgtgtgtgtgtgt-tcagTTGGTGGATAAGGATCCGGAGAGAGCGATTCCGCTGTTCTGGGCAGCCATTAATGCGGGAGATAGAGTGGACAGTGCTTTGAAAGATATGGCTATTGTTA
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-----------------------------------------------------------------------------------------gtaagcttccgttctgggaaatcttgaaa-tttgccaacaaaccgaggtttcttc---ttttgcgtgattgatctctgtttgatgggttggattatgacttttgttgcatcagTTGGTTGACAAGGACCCGGAAAAGGCAATTCCGCTATTTTGGTCCGCCATTAATGCTGGAGATCGAGTGGATAGTGCGCTCAAGGACATGGCCATTGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttcaaatgttgagtgttgttctttcgttttgtttttgtgtgtgtgtgttcagTTGGTGGATAAGGATCCGGAGAGAGCGATTCCGCTGTTCTGGGCAGCCATTAATGCGGGAGATAGAGTGGACAGTGCTTTGAAAGATATGGCTATTGTTA
ttttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatttgccttttgatggattttttcattttgcaactaattttttttagagcaaaaaccttgtaaattgcaaaaaaagaaacaaggtttttgcctcttttttttgcaatttagaaggttttttcccttttcaagtttttttcatgtttcaaatgttgagtgttgttctttcgttttgtttttgtgtgtgtgtgttcagTTGGTGGATAAGGATCCGGAGAGAGCGATTCCGCTGTTCTGGGCAGCCATTAATGCGGGAGATAGAGTGGACAGTGCTTTGAAAGATATGGCTATTGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA