Sequence
atgc intronic sequence ATGC exonic sequence...catatgaaactccagttggggcaatcttttcaaaggcacagttcataatgcatgccattgagtggctgttatagaaattaacaactttcacttgtttcagAGTCCAAATGGTGTTTGGAACATTTTTGGTGGCAAGCTTGCATGGGGACCTGAAGCCATTGTATGTGATGATCCAAATTTTCAGGGGCGCGGGAATCCTT
Basic information
species | Glycine max |
transcript | GLYMA08G26860.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G26860.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0068g00420.t01 (Vitis vinifera), 3'ss of exon 7
catatgaaactccagttggggcaatcttttcaaaggcacagttcataatgcatgccattgagtggctgttatagaaa--------ttaacaactttcacttgtttcagAGTCCAAATGGTGTTTGGAACATTTTTGGTGGCAAGCTTGCATGGGGACCTGAAGCCATTGTATGTGATGATCCAAATTTTCAGGGGCGCGGGAATCCTT
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-----taaaatttgttttgtatactttgctcata--cttaggttaca-cacatttcaatttatttatcttatcaaaaagcatggatttgacattctcactgatctcagAGTCCAAATGGTGTCTGGAACATTTTTGGTGGCAAACTTGCATGGGGACCTGAAGCAATTGTTTGTGATGATCCGAATTTCCAGGGACGTGGAAATCCTT
upper sequence: GLYMA08G26860.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S342_20V6.1 (Physcomitrella patens), 3'ss of exon 10
---------------------------------------------------------------------------------------------------catatgaaactccagttggggcaatcttttcaaaggcacagttcataatgc--atgccat-tgagtggctgttatagaaattaacaactttcacttgtttcagAGTCCAAATGGTGTTTGGAACATTTTTGGTGGCAAGCTTGCATGGGGACCTGAAGCCATTGTATGTGATGATCCAAATTTTCAGGGGCGCGGGAATCCTT
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gtaatgcagggtgttggagaacgtcaagattctccctgactttgaagctaatttgactcattgaggaatacatgtagtgtttagatgatgtgaacgaaccaaaagaggtctgaattgcggcagtaggtt--ggtgtagaatcctgaatttcagttctatatgaactgacgttgcgtagctt--tgacgtttatgatcaccagAGTCCTAATGGAGTATGGAACATATTCGGAGGCAAGCTCGCGTGGGGACCTGAGGCTATTGTAGGGGATGATCCCAATTTTCAAGGGCGGGGAAATCCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgcatgccattgagtggctgttatagaaattaacaactttcacttgtttcagAGTCCAAATGGTGTTTGGAACATTTTTGGTGGCAAGCTTGCATGGGGACCTGAAGCCATTGTATGTGATGATCCAAATTTTCAGGGGCGCGGGAATCCTT
aattaac putative branch site (score: 2)
ctttcacttgtttc putative PPT
ttatagaaattaacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catatgaaactccagttggggcaatcttttcaaaggcacagttcataatgcatgccattgagtggctgttatagaaattaacaactttcacttgtttcagAGTCCAAATGGTGTTTGGAACATTTTTGGTGGCAAGCTTGCATGGGGACCTGAAGCCATTGTATGTGATGATCCAAATTTTCAGGGGCGCGGGAATCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - -aactcca
- - - - - - - gttgggg
- - - - - - - - - - - - - - - - - - - - - - - - - catgcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaattaa