Sequence
atgc intronic sequence ATGC exonic sequencegtgatggcattccagttttttcttaatatcctttgaatatgcatgatatttttcggaaaatcaaaagaggggggagggggaggtaggacatagaatcattgggttctgccattgcttacattttgtataacccctcaccaaaaagtacggtctctggtaaataattttttttgtgtattcttttatagGCAGTTGCATGGACTATGCTGGCAATATTCTCACTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCAGTATTGCAAATA
Basic information
species | Glycine max |
transcript | GLYMA03G38940.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G38940.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g22870.1 (Oryza sativa), 3'ss of exon 4
gtgatggcattccagttttttcttaatatcctttgaatatgcatgatatttttcggaaaatcaaaagaggggggagggggaggtaggacatagaatcattgggttctgccattgcttacattttgtataacccctcaccaaaaagtacggtctctggtaaataattttttttgtgtattcttttatagGCAGTTGCATGGACTATGCTGGCAATATTCTCACTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCAGTATTGCAAATA
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---------------------------------------------------------------------------------aacagaaga-aaattctctaggagaacaggttactaactgtgaaggtaattgtaattctttgaaggctatttgaaataaaca-tgctttttccatgtttc-----agGCTGCTGCATGGATTGTTCTTGGGATATTCTCACTCATCAGACTTCATGCTGATTACCTTCTTGTTGTTGGAGTTTGCTTGAGTCTCAGCATAGCAAACA
upper sequence: GLYMA03G38940.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G048117_T01 (Zea mays), 3'ss of exon 4
gtgatggcattccagttttttcttaatatcctttgaatatgcatgatatttttcggaaaatcaaaagaggggggagggggaggtaggacatagaatcattgg-gttctgccattgcttacattttgtataacc-cctcaccaaaaagtacggtctctggtaaataattttttttgtgtattcttttat-----agGCAGTTGCATGGACTATGCTGGCAATATTCTCACTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCAGTATTGCAAATA
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-----------------------------------------------------------------------------------------------ccgttgaaggccttttattgtctattctatgtttaccaaccgtgacaactgatatgtattagaatatatataaacaaaaacaaatctcttcatgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCTGATTACCTTCTTGTTGTTGGAGTTTGCTTGAGTCTAAGCATTGCAAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcaccaaaaagtacggtctctggtaaataattttttttgtgtattcttttatagGCAGTTGCATGGACTATGCTGGCAATATTCTCACTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCAGTATTGCAAATA
ccctcac putative branch site (score: 3)
tattctttt putative PPT
taaataattttttttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatggcattccagttttttcttaatatcctttgaatatgcatgatatttttcggaaaatcaaaagaggggggagggggaggtaggacatagaatcattgggttctgccattgcttacattttgtataacccctcaccaaaaagtacggtctctggtaaataattttttttgtgtattcttttatagGCAGTTGCATGGACTATGCTGGCAATATTCTCACTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCAGTATTGCAAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG