Sequence
atgc intronic sequence ATGC exonic sequencegtttatgtatattattgcaatttttttaattttattttctaaatattcttgatagagactttagtatattcttttctttattagACAGCCAATGCTGTCCCAGTCCTATGTGTAGCAAGAAATGTTGCATGCAATGTCAGAGGTTGTTTTTTCAA
Basic information
species | Glycine max |
transcript | GLYMA07G17940.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G17940.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G039650_T02 (Zea mays), 3'ss of exon 4
gtttatgtatattattgcaatttttttaattttattttctaaatattcttgatagagactttagtatattcttttctttattagACAGCCAATGCTGTCCCAGTCCTATGTGTAGCAAGAAATGTTGCATGCAATGTCAGAGGTTGTTTTTTCAA
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----gtacttattattttattactctgtattttgtgttgaacatatacccattatggaatgatatgtatttctataaattttagATGGCCAATGCTGTTCCAGTTCTATGTGTTGCAAGGAATGTTGCTTGCAATGTTCGTGGTGGGTTTTTCAG
upper sequence: GLYMA07G17940.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G01270.1 (Arabidopsis thaliana), 3'ss of exon 4
gtttatgtatattattgcaatt--tttttaattttattttcta------aatattcttgatagagactttagtatattcttttc----tttattagACAGCCAATGCTGTCCCAGTCCTATGTGTAGCAAGAAATGTTGCATGCAATGTCAGAGGTTGTTTTTTCAA
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gcatgtggttgctcttgcatttagttgtgaattaaattctgtatcacttaattttccaagtgggtatctaaccattttcgtatgcccatttatcagACAGCCCTTGTCGTTCCACATCTCTGCGTAGCAAGAAATGTTGCATGCAATGTCAGAGGTTACTTTTTCAA
upper sequence: GLYMA07G17940.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0007g02130.t01 (Vitis vinifera), 3'ss of exon 4
---------------gtttatg---tatattattgcaatttttttaattttattttctaaatattcttgatagagactttagtatattcttttctttattagACAGCCAATGCTGTCCCAGTCCTATGTGTAGCAAGAAATGTTGCATGCAATGTCAGAGGTTGTTTTTTCAA
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gtaataaattatgctgtctataagattgataattgaaaattgtt--acattatttcatcaagactggcactaatgtgatacatatat---atttttgaatagACAACAAATCCTGTTCCAATCCTATGTGTAGCAAGAAATGTTGCGTGCAATGTCAGGGCGGGTTTTTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttattttctaaatattcttgatagagactttagtatattcttttctttattagACAGCCAATGCTGTCCCAGTCCTATGTGTAGCAAGAAATGTTGCATGCAATGTCAGAGGTTGTTTTTTCAA
tattcttttctttatt CT-rich tract
tttagtatattctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttatgtatattattgcaatttttttaattttattttctaaatattcttgatagagactttagtatattcttttctttattagACAGCCAATGCTGTCCCAGTCCTATGTGTAGCAAGAAATGTTGCATGCAATGTCAGAGGTTGTTTTTTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA