Sequence
atgc intronic sequence ATGC exonic sequencegtttgtataaatgatttccatttcttgtttgttgttcaaagttattgctagtcaactaacttattgtgttgtgaggttgtccacaaataattgtttctgttcctttgcctttttattgatagAATTCAATGCCAGCTGCTGCTGGAGCTGTTGCTGCTGCAGCTGTTGCTGATCAGATGCTGGGTCCCAAGGAAGATAGACATTTGGCAATTATCCTG
Basic information
species | Glycine max |
transcript | GLYMA18G06770.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgtataaatgatttccatttcttgtttgttgttcaa-agttattgctagtcaactaacttat-tgtgttgtgaggttgtccacaaataattgtttctgttcctttgcctttttattgatagAATTCAATGCCAGCTGCTGCTGGAGCTGTTGCTGCTGCAGCTGTTGCTGATCAGATGCTGGGTCCCAAGGAAGATAGACATTTGGCAATTATCCTG
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--------------------------gtttggcctgagctagtttctatctttcagtagagtcatctgaaatttgagaatttttt---atatttttctcacccttgtattcgttttaattttagAATTCAATGCCAGCCGCTGCAGGAGCTGTTGCCGCAGCAGCGGTAGCTGATCAAATGCTTGGACCGAAAGAAGATAGACATCTAGCAATTGTCCTG
upper sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 5
gtttgtataaa-tg-atttccatttcttgtttgttgttcaaagttattgctagtca-actaacttattgtgttgtgaggttgtccacaaataattgtttctgttcctttgcctttttattgatagAATTCAATGCCAGCTGCTGCTGGAGCTGTTGCTGCTGCAGCTGTTGCTGATCAGATGCTGGGTCCCAAGGAAGATAGACATTTGGCAATTATCCTG
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gtttgtacaaagtgcaaaggcatacttgttctgtcagtgaagatcatga--agtcataattatttgccttgtttctaggtgttcttttgata------cctgtgactctttctgttaattgttagAATGCAATGCCAGCAGCTGCTGGAGCTGTTGCAGCTGCTGCTGTAGCTGATCAGATGCTTGGTCCGAAAGAGGATAGACATTTGGCAATTGTCCTG
upper sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S414_24V6.1 (Physcomitrella patens), 3'ss of exon 5
gtttgtataaatgatttccatttcttgtttgttgttcaaagttattgctagtcaactaacttattg--tgttgtgaggttgtccacaaataattgtttctgttcctttgcctttttattgatagAATTCAATGCCAGCTGCTGCTGGAGCTGTTGCTGCTGCAGCTGTTGCTGATCAGATGCTGGGTCCCAAGGAAGATAGACATTTGGCAATTATCCTG
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----------------------gattgttcatattcacatgctgtgataaatct-ttaacatagtgactattgtacatgcatccattgg-actggatgatgatggtaaaagatgacgtgtgcagA---CAATGCCTGAAGCTGCCGGTGCTGTTGCCGCTGCAGCTGTTGCTGATCGTCTGATGG---CGAAAGAACGTCGTCAATTAGCAATCATTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgtgaggttgtccacaaataattgtttctgttcctttgcctttttattgatagAATTCAATGCCAGCTGCTGCTGGAGCTGTTGCTGCTGCAGCTGTTGCTGATCAGATGCTGGGTCCCAAGGAAGATAGACATTTGGCAATTATCCTG
ttgtttctgttccttt CT-rich tract
acaaataattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtataaatgatttccatttcttgtttgttgttcaaagttattgctagtcaactaacttattgtgttgtgaggttgtccacaaataattgtttctgttcctttgcctttttattgatagAATTCAATGCCAGCTGCTGCTGGAGCTGTTGCTGCTGCAGCTGTTGCTGATCAGATGCTGGGTCCCAAGGAAGATAGACATTTGGCAATTATCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA