Sequence
atgc intronic sequence ATGC exonic sequencegtatgtggatatacttttcttgaataaattccaataatatttcttctatttccattttcttttgttctttattcttttatttcttgttttgacaaacttgcctacatgttagAATTTGATGGCAGCTGTTGGGGTTCCTATAGGATATGGATCTCCTCTGACCTTTACTGATACTTCAAACAAGATTAAAAAAGGAACAAAGGGGGATGCTA
Basic information
species | Glycine max |
transcript | GLYMA13G03280.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G03280.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os12g07110.1 (Oryza sativa), 3'ss of exon 5
gtatgtggatatacttttcttgaataaattccaataatatttcttctatttccattttcttttgttctttattcttttatttcttgttttgacaaacttgcctacatgttagAATTTGATGGCAGCTGTTGGGGTTCCTATAGGATATGGATCTCCTCTGACCTTTACTGATACTTCAAACAAGATTAAAAAAGGAACAAAGGGGGATGCTA
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---------------------------gtgactctaaaatagcatctatttacatcatcggttacttaagatta----ataactcactgtatggatttttttt-----tcagGCACTCATAGCTGCTGTTGGGGCTTCCATAGGATATGGATCACCCTTGACCCTGACTGATACATCAAACAAAATAAAAAAGGGAACACTGGGTGATGCTT
upper sequence: GLYMA13G03280.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g02810.t01 (Vitis vinifera), 3'ss of exon 6
gtatgtggatatacttttcttgaataaattccaataatatttcttctatttccat------tttcttttgttctttattcttttatttctt-------gttttgacaaacttgc---ctacatgtt--agAATTTGATGGCAGCTGTTGGGGTTCCTATAGGATATGGATCTCCTCTGACCTTTACTGATACTTCAAACAAGATTAAAAAAGGAACAAAGGGGGATGCTA
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--gtatggaca-acctttctaaactagttgtatgtcatagcttgagtagtttgatgggaattttgttcccatcaatgatcaattttcccttcagcagtgttttaacgaaactctatgttatatgttgtagAACGTAGTAGCTGCTATTGGAGGTGCAATAGGGTATGGATCCCCTTTGACCCTCACTGATACATCAAGCAGGATAAAAAGAGGAACAAAGGGGGATGCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttgttctttattcttttatttcttgttttgacaaacttgcctacatgttagAATTTGATGGCAGCTGTTGGGGTTCCTATAGGATATGGATCTCCTCTGACCTTTACTGATACTTCAAACAAGATTAAAAAAGGAACAAAGGGGGATGCTA
ttttgac putative branch site (score: 3)
cttgcct putative PPT
tttattcttttatttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtggatatacttttcttgaataaattccaataatatttcttctatttccattttcttttgttctttattcttttatttcttgttttgacaaacttgcctacatgttagAATTTGATGGCAGCTGTTGGGGTTCCTATAGGATATGGATCTCCTCTGACCTTTACTGATACTTCAAACAAGATTAAAAAAGGAACAAAGGGGGATGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA