Sequence
atgc intronic sequence ATGC exonic sequencegtacaatgagtgttcctgaattgctcgtgtacacaaataaatgtgtcattttttttgtttaaaactgattgtctaattggactaactttttaaataattttcatctgttttcagGGACTGTAGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTCTGTAGTCATGCTGGCATCCAG
Basic information
species | Glycine max |
transcript | GLYMA10G00530.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 10
lower sequence: AC189879.3_FGT003 (Zea mays), 3'ss of exon 17
gtacaatgagtgttcctgaattgctcgtgtacacaaataaatgtgtcattttttttgtttaaaactgattgtctaattggactaacttttta-aataattttcatctgtttt----cagGGACTGTAGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTCTGTAGTCATGCTGGCATCCAG
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-------------------actgttttgaggcacagtcagatttttcttttgtttaaattgcattacattgaagtacttccccatgtttctatgactgctcacatgttgattgaaacagGAACTGTTGTTGATTCTAAGATATGCCACCCAACAGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 18
gtacaatgagtgttcctgaattgctcgtgtacacaaataaatgtgtcattttttttgtttaaaactgattgtctaattggactaactttttaaataattttcatctgtttt---cagGGACTGTAGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTCTGTAGTCATGCTGGCATCCAG
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-------gag-gcagccagatttttcttttgtttaaatcg------cattacattgaagcaagatgtaacaccctac---atttttcttttgactgctcacaagttgattgaaacagGAACCGTTGTTGATTCTAAGATATGCCACCCAACGGAGTTTGATTTCTACCTCTGTAGTCATGCTGGAATCCAG
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 16
gtacaatgagtgttcc-tg---------aattgctcgtgtacacaaataaatgtgtcattttttttgtttaaaactgattgtcta-attggactaactttttaaataattttcatctgttttcagGGACTGTAGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTCTGTAGTCATGCTGGCATCCAG
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gtaaagtttttgtttcatggaaaaatacaatttttgctgtgtgcatatgtatggaaacatgtcctcactggggttcctttttccagatttatctaacc------atatttggttcttttccacagGCACAGTGGTTGATTCTAAAATTTGCCATCCGACTGAATTTGATTTTTATCTCTGCAGCCATGCTGGTATTCAG
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S28_182V6.1 (Physcomitrella patens), 3'ss of exon 16
-----------------------------------gtacaatgagtgttcctgaattgc-tcgtgtacacaaataaatgtgtcattttttttgtttaaaactgattg--tctaattggactaactttttaaataattttcatctgt-----tttcagGGACTGTAGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTCTGTAGTCATGCTGGCATCCAG
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gtatattctcattcgtgcttcagactattttatttgttcactt-gcgtgcttggaaggcattctattttataacattttgatgattcgggaagcttgtagcagcatgatcttggatgcttcaatgtatctaacgtgtcctgtatataaatgtttcagGGACTGTAGTGGACTCAAAGATCTGTCATCCTACAGAATTCGATTTCTATCTTTGTAGTCATGCTGGGATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaactgattgtctaattggactaactttttaaataattttcatctgttttcagGGACTGTAGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTCTGTAGTCATGCTGGCATCCAG
gactaac putative branch site (score: 1)
ttttcatctgttttc putative PPT
taactttttaaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaatgagtgttcctgaattgctcgtgtacacaaataaatgtgtcattttttttgtttaaaactgattgtctaattggactaactttttaaataattttcatctgttttcagGGACTGTAGTTGATTCCAAAATCTGTCATCCAACAGAATTTGATTTTTATCTCTGTAGTCATGCTGGCATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG