Sequence
atgc intronic sequence ATGC exonic sequence...atgtttgcttttgattataccagaaaccttttgtatgatttgttgtttaatttaaattaggcttgaatcttgaaattgaaacttaaatgtatacatccagGCTGAAGGAATCTTCAGAATTAATGCTGAAAATGGTCAAGAGGAGTTTGTGAGGGAACAATTAAACAGAGGCATAGTACCAGATGGCATTGATGTGCACT
Basic information
species | Glycine max |
transcript | GLYMA03G35480.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G35480.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G113073_T01 (Zea mays), 3'ss of exon 2
atgtttgcttttgattataccagaaaccttttgta--tgatttgttgt--ttaatttaaattaggcttgaatct--tgaaat---tgaaacttaaatgtatacatccagGCTGAAGGAATCTTCAGAATTAATGCTGAAAATGGTCAAGAGGAGTTTGTGAGGGAACAATTAAACAGAGGCATAGTACCAGATGGCATTGATGTGCACT
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gtgtgtcttttatgatctcctatcatcctatgattcttagtctgttgccgtcagtgtttggaagccttatttctgatcaaataagtgtttccttattttgtactgtcagGCAGAAGGTATCTTCCGTATAAATGCAGAAAATAGCCAGGAAGAGTTTGTGAGAGACCAACTAAATAGTGGAATTGTTCCAGATGGCATTGATGTCCACT
upper sequence: GLYMA03G35480.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 2
-------atgtttgcttttg-attataccagaaaccttttgtatgatttgttgtttaatttaaattaggcttgaatcttgaaattgaaacttaaatgtatacatccagGCTGAAGGAATCTTCAGAATTAATGCTGAAAATGGTCAAGAGGAGTTTGTGAGGGAACAATTAAACAGAGGCATAGTACCAGATGGCATTGATGTGCACT
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tttctgtgagttgggttttgcagtat-cttaatgcaacttttagatcgcatcagtctttccaattttaacagagatctaaggattgaa-cttaaatgta------cagGCAGAAGGGATCTTCAGAATTAATGCTGAGAATGGCCAAGAGGAGTATGTTAGAGACCAGTTAAACAGGGGAGTAGTCCCAGATGACATTGATGTGCACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaatttaaattaggcttgaatcttgaaattgaaacttaaatgtatacatccagGCTGAAGGAATCTTCAGAATTAATGCTGAAAATGGTCAAGAGGAGTTTGTGAGGGAACAATTAAACAGAGGCATAGTACCAGATGGCATTGATGTGCACT
gtttaat putative branch site (score: 4)
aaattgaaacttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtttgcttttgattataccagaaaccttttgtatgatttgttgtttaatttaaattaggcttgaatcttgaaattgaaacttaaatgtatacatccagGCTGAAGGAATCTTCAGAATTAATGCTGAAAATGGTCAAGAGGAGTTTGTGAGGGAACAATTAAACAGAGGCATAGTACCAGATGGCATTGATGTGCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
-tgtttgc
- - - - - - - - - - - - - - - -tgtatga
- - - - - - - - - - - - - - - - - - - - tgttgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttgaa