Sequence
atgc intronic sequence ATGC exonic sequence...ttgctggcatcatctctgcctagttctgtcacatttgtctggaaaaaaaatcatagctttagagcttcactaagaagaagaaaatacttggcacttgcagGGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAG
Basic information
species | Glycine max |
transcript | GLYMA15G04830.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G04830.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g02670.3 (Oryza sativa), 3'ss of exon 5
-ttgctggcatcatctctgcctagttctgtcacatttgtctggaaaaaaaatcatagctttagagcttcactaagaagaagaaaatact---tggcacttgcagGGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAG
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gtgagtaaacttaaaattttcta-ttcattgattaaaatataatatatctatc-tgatttttcaactgcccaatactacttttgatattgaattatcattgcagGGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAG
upper sequence: GLYMA15G04830.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G024576_T01 (Zea mays), 3'ss of exon 4
ttgctggcatcatct--ctgcctagttct-gtcacatttgtctggaaaaaaaatcatagctttagagcttcactaagaa---gaagaaaatacttggcacttgcagGGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAG
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--gtgagttacttctaaatgtccaattatagataaaaaaatcaaatgcttctctctgatctttcaaatttaataaagcacttgtaacatcgaatctaca-ttgcagGGCAGAGCGAGAGAGGCTGGAGAGATCAACAAGAGTTTGCTCACGCTTGGTCGTGTTATTAATGCTCTAGTAGAGCACTCTGGACATGTACCATACAG
upper sequence: GLYMA15G04830.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G28620.1 (Arabidopsis thaliana), 3'ss of exon 4
ttgctggcatc-atctctgcctagttctgtcacatttgtctggaaaaaaaatcatagctt----tagagcttcactaagaagaagaaaatacttggcacttgcagGGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAG
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------gtacctaaaacagtcaggaaccatgattttttattgacagaataatagtgtcttaccttgatgatttactaaacaatataagagtcactat-tttgcagGGTAGAGCCAGGGAAGCTGGTGAGATCAACAAAAGTTTGCTCACACTTGGACGTGTCATAAATGCTTTGGTTGAACACTCTGGTCACATTCCATATAG
upper sequence: GLYMA15G04830.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 5
ttgctggcatcatctctgcctagttctgtcacatttgtctggaaaaaaaatcatagctttagagcttcactaagaagaa-----gaaaatacttggcacttgcagGGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAG
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--acaacaaaagcatatgcataatatgaagttgtgtgttaggcaatgaaaagttcattt---atcttcacataaaagtttgactgcaaaaattcaatgctttcagGGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaatcatagctttagagcttcactaagaagaagaaaatacttggcacttgcagGGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAG
aagaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgctggcatcatctctgcctagttctgtcacatttgtctggaaaaaaaatcatagctttagagcttcactaagaagaagaaaatacttggcacttgcagGGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAG
-tgctggc
- - - - - - -ctctgcc
- - - - - - - - - - - - -ctgtcac
- - - - - - - - - - - - - - - - - ttgtctg
- - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaa