Sequence
atgc intronic sequence ATGC exonic sequence...taaatgttattacttcttgactctgaattctcctgaattttgagttatgtttttttcactattgtcgtgaatgtaatttggacaaatataattcatacagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTTTACCAATGGTTCTAACCATTGCAGAGTCTCAG
Basic information
species | Glycine max |
transcript | GLYMA12G37070.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G061681_T02 (Zea mays), 3'ss of exon 7
taaatgttattacttcttgactctgaattctcctgaattttgag-----ttatgtttttttca-ctattgtcgtgaatgtaatttggacaaatataattcatacagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTTTACCAATGGTTCTAACCATTGCAGAGTCTCAG
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---ctgtttgtgcttttcaaa-ctgttttgtccaggaaaaagaacagccttatatttatttgatccattg--gttatttcaaagctgactcacactttgcaaccagGTTCTTCCTCCTCTTTGTGCTGAGTTACGCAACATGGTTATGCAGCCAATGATTTTGCCTATGGTTCTAACAATAGCAGAATCTCAG
upper sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 7
-taaatgttattacttcttgactctgaattctcctgaattttgagttatgtttttttcactattgtcgtgaatgtaatttggacaaatataatt---catacagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTTTACCAATGGTTCTAACCATTGCAGAGTCTCAG
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gtagtcact-ttactgacttatcttgtgtcttgataaaaaaaaagatttgatgctcaaatgatatgtctagcaacaactaagcaaaccatgttttatcatgcagGTGCTTCCACCTCTTTGTGCGGAACTTAGGAATTTAGTTTTGCAACCAATAATCTTGCCAATGGTTCTAACTATAGCACAGTCTCAG
upper sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 7
--------taaatgttattacttcttgactctgaattctcctgaattttgagtta--tgtttttttcactattgtcgtgaatgtaatttggacaaatataattcatacagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTTTACCAATGGTTCTAACCATTGCAGAGTCTCAG
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gtagtcactttctggattcttttgcgtattctgttacttaacagaaaacaaatcagttactcaagtgatttgcctagtaacaactaatcaaaccaggttttgtcaagcagGTGCTTCCTCCTCTTTGTGCTGAACTTAGGAATTTGGTTATGCAACCAGTGATTCTTCCCATGGTTCTAACTATAGCAGAGTCTCAG
upper sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 7
taaatgttattacttcttgactc---tgaattctcctgaattttgagttatgtttttttcactattgtcgtgaatgtaatttggacaaatataattcatacagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTTTACCAATGGTTCTAACCATTGCAGAGTCTCAG
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-gtctgtt-tagtttaatgaatcattcaaatgccttcaattattgcttttggaaggcatgaatagcttcaatgaagagattttc-cttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgtttttttcactattgtcgtgaatgtaatttggacaaatataattcatacagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTTTACCAATGGTTCTAACCATTGCAGAGTCTCAG
acaaatataattcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaatgttattacttcttgactctgaattctcctgaattttgagttatgtttttttcactattgtcgtgaatgtaatttggacaaatataattcatacagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTTTACCAATGGTTCTAACCATTGCAGAGTCTCAG
- - - - - - cttcttg
- - - - - - - - - - ctctgaa
- - - - - - - - - - - - - - -ctcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgta