Sequence
atgc intronic sequence ATGC exonic sequence...aactttgatcagaactattattattgttataaatatatacgactgttatcattagcatcatttggcatgtgtgaaattgaatgtagaggtctaattttagGCAACAGCTATTCGATTGGAAGTCAGAGGTGGTGAATGGAAAGATGCATTTATGCAAATGGATGGAGAACCGTGGAAACAACCAATGAGCAAGGACTTCT
Basic information
species | Glycine max |
transcript | GLYMA18G22370.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G22370.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G18730.1 (Arabidopsis thaliana), 3'ss of exon 11
aactttgatcagaactattattattgttataaatatatacgactgttatcattagcatcatttggcatgtgtgaaattgaatgtagaggtctaattttagGCAACAGCTATTCGATTGGAAGTCAGAGGTGGTGAATGGAAAGATGCATTTATGCAAATGGATGGAGAACCGTGGAAACAACCAATGAGCAAGGACTTCT
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-------------------gtaacttcaaaagacactggtcaatgt-ataatctttttagccatgtgtttgactgtttcattttggtgatc--atttcagGCTGCTGCGGTAAGATTTGAGCTAAGAGGAGGTGACTGGAGAGACGCATTCTTGCAAATGGATGGTGAGCCATGGAAGCAACCAATGAGCACTGAGTACT
upper sequence: GLYMA18G22370.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G30340.1 (Arabidopsis thaliana), 3'ss of exon 8
aactttgatcagaactattattattgttataaatatatacgactgttatcattagcatca-tttggcat--gtgtgaaattgaatgtagaggtctaattttagGCAACAGCTATTCGATTGGAAGTCAGAGGTGGTGAATGGAAAGATGCATTTATGCAAATGGATGGAGAACCGTGGAAACAACCAATGAGCAAGGACTTCT
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--------------------gtacaacaaaatacatcca-aagtttctttataagaatcggtttaacctcggtttgatattaaacc---gtttatcgttttagGCGGCTGCGATTAGATTTGAACTAAGAGGAGGTGATTGGAAAAATGCATTCTTGCAAATGGATGGTGAACCATGGAAACAACCGATGAAGAGTGATTATT
upper sequence: GLYMA18G22370.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G57690.1 (Arabidopsis thaliana), 3'ss of exon 9
aactttgatcagaactattattattgt-tataaatatatacgactgttatcattagcatcatttggcatgtgtgaaattgaatgtagaggtctaattt-tagGCAACAGCTATTCGATTGGAAGTCAGAGGTGGTGAATGGAAAGATGCATTTATGCAAATGGATGGAGAACCGTGGAAACAACCAATGAGCAAGGACTTCT
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--catatctaacatttacaattacactacataaatatggatgatatatgtctttggcaaatcgtggtagctaatgtgcaaaaacttgggttttaacgaacagGCGGCAGCGATAAGGCTGGAGATAAGAGGAGGAGACTGGAAAGATGCGTTTATGCAAATGGATGGAGAGCCATGGAAACAGCCTATGACCAGAGACTACT
upper sequence: GLYMA18G22370.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S213_133V6.2 (Physcomitrella patens), 3'ss of exon 14
aactttgatcagaactatta---ttattgttataaatatatacgactgttatcattagcatcatttggcatgtgtgaaattgaatgtagag-gtctaattttagGCAACAGCTATTCGATTGGAAGTCAGAGGTGGTGAATGGAAAGATGCATTTATGCAAATGGATGGAGAACCGTGGAAACAACCAATGAGCAAGGACTTCT
||||| | | | | || | ||| | || ||| |||| | | |||| ||| | | || | | | | | | | |||| || || | | || ||| ||| || | || | || | |||||||||||||||||| ||||||| ||||||||| | | | |
----ttgattaaacccagtaagttgattcacactcattaatagtactgcccagttccgttagctttgtcattttttaatccaattatctcgcattttgctccagGCCGAGGCAATCAAAATTGAGCTCAATGGTCATGCGCGAAAGAAAGCTTATATGCAAATGGATGGAGAGCCGTGGATGCAACCAATGGGTTCGCATCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatcattagcatcatttggcatgtgtgaaattgaatgtagaggtctaattttagGCAACAGCTATTCGATTGGAAGTCAGAGGTGGTGAATGGAAAGATGCATTTATGCAAATGGATGGAGAACCGTGGAAACAACCAATGAGCAAGGACTTCT
gtctaat putative branch site (score: 3)
tctaatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactttgatcagaactattattattgttataaatatatacgactgttatcattagcatcatttggcatgtgtgaaattgaatgtagaggtctaattttagGCAACAGCTATTCGATTGGAAGTCAGAGGTGGTGAATGGAAAGATGCATTTATGCAAATGGATGGAGAACCGTGGAAACAACCAATGAGCAAGGACTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgta