Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgtaatactcattgtctgtactttgcctactagttctattattgtctcatggcagtagcttacattgattctcattttcatgttcatgttcttgttgatgaacagTGGCCTTATGAAGCTGCTGCCATTGCTTTTGAGGCAATCCCCCGTACTTTGGCACAAAATTGTGGAGTAAATGTGATCCGCACTATGACTGCACTACAAG
Basic information
species | Glycine max |
transcript | GLYMA20G35760.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35760.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G175510_T01 (Zea mays), 3'ss of exon 11
gtgagtgtaatactcattgtctgtactttgcctactagttctattattgtctcatggcagtagcttacattgattctcattttcatgttcatgtt-cttgttgatgaacagTGGCCTTATGAAGCTGCTGCCATTGCTTTTGAGGCAATCCCCCGTACTTTGGCACAAAATTGTGGAGTAAATGTGATCCGCACTATGACTGCACTACAAG
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-------gactacatatacgttgcaactgtgatgttattgtgctgagtggattattgcactattct---ttgatgtgcaattcctgattgtttttgtttgtttgtgt-cagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTGGCCCAAAATTGTGGTTTGAATGTTATTAGGATAATGACACAACTTCAGG
upper sequence: GLYMA20G35760.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G069765_T05 (Zea mays), 3'ss of exon 11
gtgagtgtaatactcattgtctgtactttgcctactagttctattattgtctcatggcagtagcttacattgattctcattttcatgttcatgttct-tgttgatgaacagTGGCCTTATGAAGCTGCTGCCATTGCTTTTGAGGCAATCCCCCGTACTTTGGCACAAAATTGTGGAGTAAATGTGATCCGCACTATGACTGCACTACAAG
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----------cacatatactttgtaaatgtgatgttattgtgctcagtggatttttgcaccattctttgatgtgcaatttctgattggttttgttttctgtttatgt-cagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTGGCCCAAAATTGCGGTTTGAATGTTATTAGGATAATGACACAACTTCAAG
upper sequence: GLYMA20G35760.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv17s0000g08170.t01 (Vitis vinifera), 3'ss of exon 10
---------------------------------------------------------------gtgagtgtaa--tactcattgtctgtactttgcctactagttctattattgtctcatggc-----agtagcttacattgattctcattttcatgttcatgttcttgttgatgaa-cagTGGCCTTATGAAGCTGCTGCCATTGCTTTTGAGGCAATCCCCCGTACTTTGGCACAAAATTGTGGAGTAAATGTGATCCGCACTATGACTGCACTACAAG
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gtaaattttgcttctttctcatgtatcaaatttgatgtggtttttccatttgaatttttcaagataaatattggttgataatcaccaaggttttatgaaattgtttagttattgcactgcagttttctgatgctttatgcaattttccctatttgtaattttctgctcgtttgtgaaacagTGGCCTTATGAAGCTGCTGCTATAGCTTTTGAGGCTATTCCACGTACTTTGGCACAGAATTGTGGTGTGAATGTGATTAGGACTATGACTGCTTTGCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcagtagcttacattgattctcattttcatgttcatgttcttgttgatgaacagTGGCCTTATGAAGCTGCTGCCATTGCTTTTGAGGCAATCCCCCGTACTTTGGCACAAAATTGTGGAGTAAATGTGATCCGCACTATGACTGCACTACAAG
ttcttgtt CT-rich tract
attttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgtaatactcattgtctgtactttgcctactagttctattattgtctcatggcagtagcttacattgattctcattttcatgttcatgttcttgttgatgaacagTGGCCTTATGAAGCTGCTGCCATTGCTTTTGAGGCAATCCCCCGTACTTTGGCACAAAATTGTGGAGTAAATGTGATCCGCACTATGACTGCACTACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG