Sequence
atgc intronic sequence ATGC exonic sequence...aacagcaatatgaatcgtttgtgttttctagtgcccaaatgttctacttcatttcatttcttacaagcatttattctctaacatactgacataattgcagCGAAACTATCGGTACTTCTTCATGTTTATTTCGACATCAACCATTTTGTGCATATATGTCTTCTCGTTCTCTTGTATCAATATTGCCCGCAGTGGTGTTT
Basic information
species | Glycine max |
transcript | GLYMA03G27410.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G27410.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G56930.1 (Arabidopsis thaliana), 3'ss of exon 3
aacagcaatatgaatcgtttgtgttttctagtgcccaaatgttctacttcatttcatttcttacaagcatttattctctaacatact--gacataattgcagCGAAACTATCGGTACTTCTTCATGTTTATTTCGACATCAACCATTTTGTGCATATATGTCTTCTCGTTCTCTTGTATCAATATTGCCCGCAGTGGTGTTT
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------------------------------gtaagtttactccatgactcttgccatatattcccggttctatgttttgaacttgtttggattcttttgcagCGAAATTACCGGTTCTTCTTCATGTTCATATCAACATCAACCACTCTGTGCATATATGTGTTTGCCTTTTCTTGGTTGAACATATTTCAAAGACATATGG
upper sequence: GLYMA03G27410.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G56930.2 (Arabidopsis thaliana), 3'ss of exon 3
aacagcaatatgaatcgtttgtgttttctagtgcccaaatgttctacttcatttcatttcttacaagcatttattctctaacatact--gacataattgcagCGAAACTATCGGTACTTCTTCATGTTTATTTCGACATCAACCATTTTGTGCATATATGTCTTCTCGTTCTCTTGTATCAATATTGCCCGCAGTGGTGTTT------------------------------------------------------------------------------------------------------------
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------------------------------gtaagtttactccatgactcttgccatatattcccggttctatgttttgaacttgtttggattcttttgcagcgaaattaccggttcttcttcatgttcatatcaacatcaaccactctgtgcatatatgtgtttgccttttcttggttgaacatatttcaaagacatatggatgaaaagATTAGCATCTGGAAAGCTATATCCAAAGATGTTCTATCGGATATTCTCATAGTTTACTGCTTCATTACTGTTTGGTTTGTTGGAGGACTCACAATATTTC
upper sequence: GLYMA03G27410.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0040g00380.t01 (Vitis vinifera), 3'ss of exon 3
aacagcaatatgaatcgtttgtgttttctagtgcc-caaatgttctacttcatttcattt------cttaca-agcatttattctctaacatactgacataattgcagCGAAACTATCGGTACTTCTTCATGTTTATTTCGACATCAACCATTTTGTGCATATATGTCTTCTCGTTCTCTTGTATCAATATTGCCCGCAGTGGTGTTT
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------agtcaatttcattt-tgtgtccaaatgcctcatatattattcttgttttcttggtagaagctaacacagctcttgtgtggtgatct-cttatctgaccgcagCGCAACTATCGGTTCTTCTTCATGTTTATATCAACATCAACCATCCTGTGCTTATATGTCTTTACATTTTCCTGGATCATCATTATTCAAGGAAAGGGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttcatttcatttcttacaagcatttattctctaacatactgacataattgcagCGAAACTATCGGTACTTCTTCATGTTTATTTCGACATCAACCATTTTGTGCATATATGTCTTCTCGTTCTCTTGTATCAATATTGCCCGCAGTGGTGTTT
tactgac putative branch site (score: 1)
atttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacagcaatatgaatcgtttgtgttttctagtgcccaaatgttctacttcatttcatttcttacaagcatttattctctaacatactgacataattgcagCGAAACTATCGGTACTTCTTCATGTTTATTTCGACATCAACCATTTTGTGCATATATGTCTTCTCGTTCTCTTGTATCAATATTGCCCGCAGTGGTGTTT
- - - - - - - - gtttgtg
- - - - - - - - - - - - - - - -tgcccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caagcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tactgac