Sequence
atgc intronic sequence ATGC exonic sequencegtattggtgtacattacttcaattttacctttgaatatcagtatgaatgttaatataccatattcttcctttattttgtggcaatttgaaacacaagtattttatgacctcgaggcattgcagtttttttaacttttttatgctggatttgtcatttgtcatacagTTAAGTTTTGTGGATCTTGCTGGCTCAGAAAGAGTAAAAAAGTCGGGCTCTTCAGGTAGTCAACTTAAAGAAGCTCAAAGTATCAACAAATCATTATCAG
Basic information
species | Glycine max |
transcript | GLYMA01G35950.1 |
intron # | 22 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 22
lower sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 21
gtattggtgtacattacttcaattttacctttgaatatcagtatgaatgttaatataccatattcttcctttattttgtggcaatttgaaacacaa-gtattttatgacct-cgaggcattgcagtttttttaacttttttatgctggatttgtcatttgtcatacagTTAAGTTTTGTGGATCTTGCTGGCTCAGAAAGAGTAAAAAAGTCGGGCTCTTCAGGTAGTCAACTTAAAGAAGCTCAAAGTATCAACAAATCATTATCAG
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--------------------------------------------------------------taattaattaagaataaataaactctgcacagaacacactatatgttaagctaggctgtgagatgctatt--ctaagctgt-caaaattttccgtgtga---acagCTAAGTTTCGTGGACCTTGCTGGTTCTGAGAGGGTGAAAAAGTCCGGCTCAGCAGGAAAACAACTGAAAGAAGCTCAAAGCATCAATAAGTCTCTTTCTG
upper sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 22
lower sequence: AT5G65930.2 (Arabidopsis thaliana), 3'ss of exon 19
gtattggtgtacattacttcaattttacctttgaatatcagtatgaatgttaatataccatattcttcctttattttgtggcaatttgaaacacaagtattttatgacctcgaggcattgcagtttttttaacttttttatgctggatttgtcatttgtcatacagTTAAGTTTTGTGGATCTTGCTGGCTCAGAAAGAGTAAAAAAGTCGGGCTCTTCAGGTAGTCAACTTAAAGAAGCTCAAAGTATCAACAAATCATTATCAG
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----------------------------------------------atattattagtcaatgatatgccctc---------cattgttaaaccca--tatcacctgatcatg----gtggtatcttctacaatattctgaatttttgtttgttatttg-----cagCTGAGTTTTGTGGATCTTGCTGGTTCTGAGAGAGTTAAAAAGTCGGGCTCAGCTGGTTGTCAACTCAAAGAAGCTCAAAGTATCAACAAATCACTTTCTG
upper sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 21
gtattggtgtacattacttcaattttacctttgaatatcagtatgaatgttaatataccatattcttcctttattttgtggcaatttgaaacacaag-tattttat-gacctcgaggcattgcagt----ttttttaacttttttatgctggatttgtcatttgtcatacagTTAAGTTTTGTGGATCTTGCTGGCTCAGAAAGAGTAAAAAAGTCGGGCTCTTCAGGTAGTCAACTTAAAGAAGCTCAAAGTATCAACAAATCATTATCAG
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------------------------------------------------------------------------aatctgtgttaacatggagtgtgagatgtcttgttggggcttacttattgtgataatgtttatttgtctttacatgacaattttaaaactctatctgcagCTAAGTTTTGTGGATCTTGCTGGTTCAGAAAGGGTGAAGAAATCAGGCTCTTCAGGTAATCAACTTAAGGAAGCTCAAAGCATCAACAAGTCACTTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaggcattgcagtttttttaacttttttatgctggatttgtcatttgtcatacagTTAAGTTTTGTGGATCTTGCTGGCTCAGAAAGAGTAAAAAAGTCGGGCTCTTCAGGTAGTCAACTTAAAGAAGCTCAAAGTATCAACAAATCATTATCAG
ttttaac putative branch site (score: 2)
agtttttttaactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattggtgtacattacttcaattttacctttgaatatcagtatgaatgttaatataccatattcttcctttattttgtggcaatttgaaacacaagtattttatgacctcgaggcattgcagtttttttaacttttttatgctggatttgtcatttgtcatacagTTAAGTTTTGTGGATCTTGCTGGCTCAGAAAGAGTAAAAAAGTCGGGCTCTTCAGGTAGTCAACTTAAAGAAGCTCAAAGTATCAACAAATCATTATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA