Sequence
atgc intronic sequence ATGC exonic sequencegtaaatacaggcttctagtctttctactgctgaagtatgcttggtatctgactaagtccccgtgtctgtacactattatttccattaaatgatcagtaatgagcttatgaaacagGTTTGCTTACAATTGGTCCTCGATTTGGGGGTGCCATTGATGATGCTGCTCGCTATTTCAAGGATGCCTATGACAGG
Basic information
species | Glycine max |
transcript | GLYMA17G03700.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G03700.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os01g19450.1 (Oryza sativa), 3'ss of exon 13
gtaaatacaggcttctagtctttctactgctgaagtatgcttggtatctgactaagtccccgtgtctgtacactattatttccatta-aatgatcagtaatgagcttatgaaacagGTTTGCTTACAATTGGTCCTCGATTTGGGGGTGCCATTGATGATGCTGCTCGCTATTTCAAGGATGCCTATGACAGG
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------gtgagcttcttctacatgtac-----atgtaaacat--tgtccg-ttaagtt---gtttgaatatattacagcataggttatgaagattgctattgaaatattg---cagGTTTATTGACAATTGGCCCCCGTTTTGGTGGTGCAATTGATGATGCTGCCCGGTACTTCAAAGATGCATATGATAGA
upper sequence: GLYMA17G03700.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G49460.1 (Arabidopsis thaliana), 3'ss of exon 13
gtaaatacaggcttctagtctttctactgctgaagtatgcttggtatctgactaagtccccgtgtctgtacactattatttccattaaatgatcagta-atgagcttatgaaacagGTTTGCTTACAATTGGTCCTCGATTTGGGGGTGCCATTGATGATGCTGCTCGCTATTTCAAGGATGCCTATGACAGG
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-------------------------gtcagtcaa-cattttttttcccccacaaaa----cacataagttctctttaccgtccaacaatctctaagaatgttaaaccataaaacagGTTTATTGACCATTGGTCCCCGATTTGGTGGTGCCATTGATGACGCTGCTCGATACTTCAAAGACGCGTGTGACAGG
upper sequence: GLYMA17G03700.1 (Glycine max), 3'ss of exon 12
lower sequence: AT3G06650.1 (Arabidopsis thaliana), 3'ss of exon 13
gtaaatacaggcttctagtctttctactgctgaagt-atgcttggtatctgactaagtccccgtgtctgtacactattatttccattaaatgatcagtaatgagcttatgaaacagGTTTGCTTACAATTGGTCCTCGATTTGGGGGTGCCATTGATGATGCTGCTCGCTATTTCAAGGATGCCTATGACAGG
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gtgaat-taacatcccaatccatcaactttttaagtgaagtttgctatataataa----cttatg-ctg------attatt--cttcaaac-------------------aaacagGTCTATTAACAATCGGTCCTAGATTTGGTGGTGCCATTGATGATGCAGCACGATACTTCAAGGACGCTTGTGACAGG
upper sequence: GLYMA17G03700.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv05s0077g00950.t01 (Vitis vinifera), 3'ss of exon 13
gtaaatacaggcttctagtctttctactgctgaagtatgcttggtatctgactaagtccccgtgtctgtacactattatttccattaaatgatca-gtaatgagcttatgaaacagGTTTGCTTACAATTGGTCCTCGATTTGGGGGTGCCATTGATGATGCTGCTCGCTATTTCAAGGATGCCTATGACAGG
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gtaaattgtagcaattatgtttcatttttatttag-atggagggatcatatcttcattggaaatgctgtagtgtgg-gcttttgtgaactgattttataatg-------gaaacagGCTTGCTTACAATTGGTCCCCGATTTGGTGGAGCTATTGATGATGCTGCTCGATACTTCAAGGACGCTTATGATAGG
upper sequence: GLYMA17G03700.1 (Glycine max), 3'ss of exon 12
lower sequence: PP1S46_63V6.2 (Physcomitrella patens), 3'ss of exon 12
-------gtaaatacaggcttctagtctttcta-----ctgctgaagtatgcttggtatctgactaagtccccgtgtctgtacactattatttccat-taaatgatcagtaatgagcttatgaaa--cagGTTTGCTTACAATTGGTCCTCGATTTGGGGGTGCCATTGATGATGCTGCTCGCTATTTCAAGGATGCCTATGACAGG-----------------------
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gtacagtctaaattgcagaagctatgttatgtatgaagctcttgaaatattctttgctattgctaaagcttgccccgttatac-ttatcagaattgtgtaactgatttatatttttttaatgaatactagGTCTTCTCACAATTGGCCCTCGTTTTGGTGGAGCTATTGATGATGCTGCTCGCTATTTTAGAGAAGCCCATGACAACGGATTATCGCCTTACGCATTTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtgtctgtacactattatttccattaaatgatcagtaatgagcttatgaaacagGTTTGCTTACAATTGGTCCTCGATTTGGGGGTGCCATTGATGATGCTGCTCGCTATTTCAAGGATGCCTATGACAGG
tattatttccattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatacaggcttctagtctttctactgctgaagtatgcttggtatctgactaagtccccgtgtctgtacactattatttccattaaatgatcagtaatgagcttatgaaacagGTTTGCTTACAATTGGTCCTCGATTTGGGGGTGCCATTGATGATGCTGCTCGCTATTTCAAGGATGCCTATGACAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG