Sequence
atgc intronic sequence ATGC exonic sequencegtcagtatttcttttttttccttggtgttttaatctgagcactattaccttacttggatagggaaaccaggtggggggagtgaatgaagccgttgtactacctgcttaaatattattactattatttccataatggtctgtttacattcaatattttttgtttcacatatattgagctgctatgtagGTGTGCTGTTCTGGTCATGGAAAAAATGGTTCTCTTTGTGTTTTGCGGCAATCAATTCGCCCAGAAGTGATTACTGAG
Basic information
species | Glycine max |
transcript | GLYMA16G32890.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G32890.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os04g18010.1 (Oryza sativa), 3'ss of exon 12
gtcagtatttcttttttttccttggtgttttaatctgagcactattaccttacttggatagggaaaccaggtggggggagtgaatgaagccgttgtactacctgcttaaatattattactattatttccataatggtctgtttacattcaatattttttgtttcacatatattgagctgctatgtagGTGTGCTGTTCTGGTCATGGAAAAAATGGTTCTCTTTGTGTTTTGCGGCAATCAATTCGCCCAGAAGTGATTACTGAG
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-----------------------------------------------------------------------------------gcatattattaccattttttcctttaat-taagtactgctgtat--gtaatttatccttgatttgggctactcatttttctaaacaatataagcttattt-cagGTGTGCTGTTCTGGTCATGGTAAAAATGGTTCACTTTCTGTCCTTCAACAATCTATCCGTCCTGATTTAATTACTGAG
upper sequence: GLYMA16G32890.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G51660.1 (Arabidopsis thaliana), 3'ss of exon 12
gtcagtatttcttttttttccttggtgttttaatctgagcactattaccttacttggatagggaaaccaggtggggggagtgaatgaag-ccgttgtactacctgcttaaatattattactattatttccataatggtctgtttacattcaatattttttgtttcacatatattgagct-gctatgtagGTGTGCTGTTCTGGTCATGGAAAAAATGGTTCTCTTTGTGTTTTGCGGCAATCAATTCGCCCAGAAGTGATTACTGAG
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------------------------------------------------------------------------------------tgaaatcctttgttccacaactttatttgttgacatgcttgcctc-ata----tttgtctaaaaactgtagcccccaaactaaaaatctgaattttggcgtttagGTGTGCTGTTCTGGTCATGGGAAGAATGGTGCTTTATGTGTTCTTCGGCAGTCAATTAGACCGGAAATGATTACTGAG
upper sequence: GLYMA16G32890.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv16s0022g01860.t01 (Vitis vinifera), 3'ss of exon 12
gtcagtatttcttttttttccttggtgttttaatctgagcactattaccttacttggatagggaaaccaggtggggggagtgaatgaagccgttgtactacctgcttaaatattattactattatttccataatggtctgtttacattcaatattttttgtttcacatatattgagctgctatgtagGTGTGCTGTTCTGGTCATGGAAAAAATGGTTCTCTTTGTGTTTTGCGGCAATCAATTCGCCCAGAAGTGATTACTGAG
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------------------------------------------------------------------------------------tgcatctacctt--ttccaaatctaagaaccttagagtatcctgtctcatagtttgaaaatatgtt-tgttattattattattttttttggggtacttttcagGTGTGTTGTTCTGGTCATGGAAAGAATGGTGCTCTCTGCATTCTGCAGCAATCAATTCGTCCAGAAATGATCACGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggtctgtttacattcaatattttttgtttcacatatattgagctgctatgtagGTGTGCTGTTCTGGTCATGGAAAAAATGGTTCTCTTTGTGTTTTGCGGCAATCAATTCGCCCAGAAGTGATTACTGAG
attcaatattttttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtatttcttttttttccttggtgttttaatctgagcactattaccttacttggatagggaaaccaggtggggggagtgaatgaagccgttgtactacctgcttaaatattattactattatttccataatggtctgtttacattcaatattttttgtttcacatatattgagctgctatgtagGTGTGCTGTTCTGGTCATGGAAAAAATGGTTCTCTTTGTGTTTTGCGGCAATCAATTCGCCCAGAAGTGATTACTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT