Sequence
atgc intronic sequence ATGC exonic sequencegtaatattttgtgatttattgttttggcactgttatatggttcaaaatgcatcaatagttattcactctgcttgtatctataattggaaaagcttatttacaactctttttgcataatatctttatggtgaaattttcatcatttctcgtttgctacttctgaagGTATTATGATGATGCTGCCTGTGTGCTGCGAAAGATGTTCTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCACCAACTTTACCATGGAAAGTA
Basic information
species | Glycine max |
transcript | GLYMA18G49000.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 11
gtaatattttgtgatttattgttttggcactgttatatggttcaaaatgcatcaatagttattcactctgcttgtatctataattggaaaagcttatttaca-actctttttgcataata-tctttatggtgaaattttcatcatttctcgtttgctacttctgaagGTATTATGATGATGCTGCCTGTGTGCTGCGAAAGATGTTCTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCACCAACTTTACCATGGAAAGTA
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-------------------------------------------------------------------gtaatt-tatttaatcctagtgttcttttcttacagactgtctatggaccttaattagttctgaaagatttgcgtaagtttt--tctatcattc----agGTATTATGACGATGCTGCATGCATCTTACGAAAGATATTTCTAGATGCAAAGGCACCTCATCTTTCTTCAACCATCCCTCCAAGCCTTCCTTGGAAATCT
upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 12
gtaatattttgtgatttattgttttggcactgttatatggttcaaaatgcatcaatagttattcactctgc-ttgtatctataattggaaaagcttatttacaactctttttgcataatatctttatggtgaaattttcatcatttctcgtttgctacttctgaagGTATTATGATGATGCTGCCTGTGTGCTGCGAAAGATGTTCTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCACCAACTTTACCATGGAAAGTA
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-----------------------------------------------------gataaacactgtgtcatcgtcatatccacttttggaactctcagtttgta------ttcatttggagttttaat--cagaaatgtcaccagatctctttctctgt-----aagGTATTACGACGATGCTGCTTGTGTGCTACGGAAAATGTTTTTGGATGCAAAGGCTCCTCATCTTTCTTCAACAATTCCTCCCATTCTGCCATGGAAAATC
upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 12
-----------------gtaatattttgtgatttattgttttggcactgttatatggttcaaaatgcatcaatagttattcactctgcttgtatctataattggaaaagcttatttacaactctttttgcataatatctttatggtgaaattttcatcatttctcgtttgctacttctgaagGTATTATGATGATGCTGCCTGTGTGCTGCGAAAGATGTTCTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCACCAACTTTACCATGGAAAGTA
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gtaagctagcatctgcatttttattttctttcttaaaatcatagttgtatt-tataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattca-caaatctcttgcactgt-----aagGTATTATGACGATGCTGCGTGTGTGCTAAGGAAAATGTGTTTGGATGCAAAAGCTCCTCATCTCTCATCCACTCTTCCTCCCACCTTGCCATGGAAGGTC
upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 11
gtaatattttgtgatttattgttttggcactgttatatggttcaaaatgcatcaatagttattcactctgcttgtatctataattggaaaagcttatttacaactctttttgcataatatctttatggtgaaattttcatcatttctcgtttgctacttctgaagGTATTATGATGATGCTGCCTGTGTGCTGCGAAAGATGTTCTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCACCAACTTTACCATGGAAAGTA
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----------------------------------------------ttttgacatatattctttactccattttcatctt-----------actatttcaataatcattttttgtgttggttgta----aaaatgtacacggtatctc-tttccaactac---agGTATTATGATGATGCTGCTTGTGTGTTGAGGAAGATGTTTATAGACGCGAAGGCCCCTCATCTTTCTTCAACAATTCCACCAACTTTACCTTGGAAGGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcataatatctttatggtgaaattttcatcatttctcgtttgctacttctgaagGTATTATGATGATGCTGCCTGTGTGCTGCGAAAGATGTTCTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCACCAACTTTACCATGGAAAGTA
ctacttct CT-rich tract
aaattttcatcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatattttgtgatttattgttttggcactgttatatggttcaaaatgcatcaatagttattcactctgcttgtatctataattggaaaagcttatttacaactctttttgcataatatctttatggtgaaattttcatcatttctcgtttgctacttctgaagGTATTATGATGATGCTGCCTGTGTGCTGCGAAAGATGTTCTTAGATGCAAAAGCACCTCATCTTTCTTCAGCAATTCCACCAACTTTACCATGGAAAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA