Sequence
atgc intronic sequence ATGC exonic sequencegtaggtttctttgtcttaagtgctaaaaaatgcattttgttaataagttgtgtttgttaaaatgctgacatgaaagctttatataaggttttatgacctataattttgcagTATTGCCGAGTGCTTTGCTTTCCTTGTATGTACAAAGTGGTCCAATCCCGTCATTCATAGAAATTCAAGAGAAGCTAGTAGTTCATCTTCAACTACGATT
Basic information
species | Glycine max |
transcript | GLYMA05G07960.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G07960.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G73950.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaggtttctttgtcttaagtgctaaaaaatgcattttgttaataagttgtgtttgttaaaatgctgacatgaaagctttatataaggttttatgacctataattttgcagTATTGCCGAGTGCTTTGCTTTCCTTGTATGTACAAAGTGGTCCAATCCCGTCATTCATAGAAATTCAAGAGA---AGCTAGTAGTTCATCTTCAACTACGATT
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---gtatgcattgtctttgccgtt------tctgttacatatgtgaat-gtcttaatgctattcgtggaattga-gcatgattgtaatcattgtgtacgtttcgcttgcagAATCGCAGAGTGCTTTGCGTTTCTTGTTTGTACAAAATGGTCTAATCCAGTGATTCATAGAAGCTCACGTGATAGAGAAACTGGGTCATCTTCTACCAAT---
upper sequence: GLYMA05G07960.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G18470.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaggtttctttgtcttaagtgctaaaaaatgcattttgttaataagttgtgtttgttaaaatgctgacatgaaagctttatataaggttttatgacctataat-tttgcagTATTGCCGAGTGCTTTGCTTTCCTTGTATGTACAAAGTGGTCCAATCCCGTCATTCATAGAAATTCAAGAG---AAGCTAGTAGTTCATCTTCAACTACGATT
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gtatgttttgttttggtctttctttgtttaagtctttgagaagtacttgccatttttatggttgctggtaaagaatatgaaagtaatatat-atgaaatgttctgcttgcagAATTGCCGAGTGCTTTGCTTTTCTTGTTTGCACAAAATGGTCCAATCCAGTAATCCATAGAAGCTCACGTGCCCGAGAAACCGGGTCATCTTCTACCAGT---
upper sequence: GLYMA05G07960.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g04160.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------------------------gtaggtttctttgtcttaagtgctaaaaaatgcattt-tgttaataagttgtgtttgttaaaatgctgacatgaaagctttatataaggttttatgacctataattttgcagTATTGCCGAGTGCTTTGCTTTCCTTGTATGTACAAAGTGGTCCAATCCCGTCATTCATAGAAATTCA---AGAGAAGCTAGTAGTTCATCTTCAACTACGATT
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gtatgtacctcacaagttcatgtttttcttttcttttcttttttggtttcttttactttaatattgtctagagcagtgatgtgaatagtttcttcatgcttttg-aatgagagaaagaaatgatg-aatgtgtcatgttct----tttaacagCATTGCAGAGTCCTTTGCCTTCCTTGTTTGTACAAAGTGGTCTAATCCAGTGATCCATAGAAATTCTCACACAACAGAAGCTGGTTCATCTTCTACAACT--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaaatgctgacatgaaagctttatataaggttttatgacctataattttgcagTATTGCCGAGTGCTTTGCTTTCCTTGTATGTACAAAGTGGTCCAATCCCGTCATTCATAGAAATTCAAGAGAAGCTAGTAGTTCATCTTCAACTACGATT
tgctgac putative branch site (score: 2)
tttatataaggtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtttctttgtcttaagtgctaaaaaatgcattttgttaataagttgtgtttgttaaaatgctgacatgaaagctttatataaggttttatgacctataattttgcagTATTGCCGAGTGCTTTGCTTTCCTTGTATGTACAAAGTGGTCCAATCCCGTCATTCATAGAAATTCAAGAGAAGCTAGTAGTTCATCTTCAACTACGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC