Sequence
atgc intronic sequence ATGC exonic sequencegtaagaagacattgtttgtgataagttttaacaagtcttgtagGTTGCTGAGCCTTTGAGAGCGATGGTGATGGGAGCACCTTTGGAAGACGCGCGGCACTTGGCACAACGCTATGATCGTCTGCGCCAGGAGGCTGAAGCGC
Basic information
species | Selaginella moellendorffii |
transcript | EFJ32107 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ32107 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA04G01100.2 (Glycine max), 3'ss of exon 4
----------------------------------------------------gtaagaagacattgtttgtgataagttttaacaagtcttg-----tagGTTGCTGAGCCTTTGAGAGCGATGGTGATGGGAGCACCTTTGGAAGACGCGCGGCACTTGGCACAACGCTATGATCGTCTGCGCCAGGAGGCTGAAGCGC
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tatgctggctcattgtcaatttatccaatttgtgcttgattttttttatctggcataatgtttctgcgagtgaacattttaagtattgcttgatgcttagGTTGCAGAGCCCTTGAGAGCAATGGTGATGGGAGCTCCATTGGAGGATGCCCGGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCAC
upper sequence: EFJ32107 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S34_169V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------------------------------gtaagaagacattgtttgtgataagtt----ttaacaagt----cttgtagGTTGCTGAGCCTTTGAGAGCGATGGTGATGGGAGCACCTTTGGAAGACGCGCGGCACTTGGCACAACGCTATGATCGTCTGCGCCAGGAGGCTGAAGCGC
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ctcactttaccagttttctgcgcatgattgtttcaaggacttctgtatattaagctttgatcttgtaccaaaaactcagtttgatatgctgacccaacagGTGGCAGAACCTTTGAGAGCAATGGTAATGGGCGCACCTTTGGAAGATGCTCGTCATCTGGCACAACGATACGATCGCTTACGTCAAGAGGCTGAAAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagaagacattgtttgtgataagttttaacaagtcttgtagGTTGCTGAGCCTTTGAGAGCGATGGTGATGGGAGCACCTTTGGAAGACGCGCGGCACTTGGCACAACGCTATGATCGTCTGCGCCAGGAGGCTGAAGCGC
ttttaac putative branch site (score: 2)
ataagttttaacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaagacattgtttgtgataagttttaacaagtcttgtagGTTGCTGAGCCTTTGAGAGCGATGGTGATGGGAGCACCTTTGGAAGACGCGCGGCACTTGGCACAACGCTATGATCGTCTGCGCCAGGAGGCTGAAGCGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC