Sequence
atgc intronic sequence ATGC exonic sequencegtaagcttctcttcagtttgtctagtctatccattccaaatcctatgacgcgtttttttctgtcttgtttttttcttgctagTGGGCCTGCTGTGATGTTCATGTGAAGGAGTTTGACGAGTTCCTGGAGATCCCGCCGTGCTCGAAAGGCTGGCACAGCAGCCAATAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ25752 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ25752 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: GRMZM5G868908_T01 (Zea mays), 3'ss of exon 4
--------------------------gtaagcttctcttcagtttgtctagtctatccattccaaatcctatgacgcgtttttttctgtcttgtttttttcttgctagTGGGCCTGCTGTGATGTTCATGTGAAGGAGTTTGACGAGTTCCTGGAGATCCCGCCGTGCTCGAAAGGCTGGCACAGCAGCCAATAG--------------
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gtatgtatatatttgaaggatttatttgaagctatatgttgatttctgcc-tctgtaaacagctattctcgccatccctaaaccccatatctgttctgttcttgc-agTGGAAATGCTGTGATGTTCATGTCAAGGAGTTTGACGAGTTTATGGAGATACCTACATGCACAAAGGGTTGGCATAAT-GCTGATGCGGTGTGAATTCACG
upper sequence: EFJ25752 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: AT5G51700.1 (Arabidopsis thaliana), 3'ss of exon 5
---gtaagcttctcttcagtttgtctagtctatccattccaaatcctatgacgcgtttttttctgtcttgtttttttcttgct--agTGGGCCTGCTGTGATGTTCATGTGAAGGAGTTTGACGAGTTCCTGGAGATCCCGCCGTGCTCGAAAGGCTGGCACAGCAGCCAATAG-------------
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gtaacacgttctttgttcaatcattttgtg-acccttttctttcactgtttgaatttctattgaatatcactgttttctttgtgtagTGGAAATGTTGCGATGTTCACGTGAAGGAGTTCGACGAGTTCATGGAAATACCTCCTTGCACTAAAGGATGGCATAGCAGCAGCCCTGATCCGGCGGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatccattccaaatcctatgacgcgtttttttctgtcttgtttttttcttgctagTGGGCCTGCTGTGATGTTCATGTGAAGGAGTTTGACGAGTTCCTGGAGATCCCGCCGTGCTCGAAAGGCTGGCACAGCAGCCAATAG
cgtttttttctgtctt CT-rich tract
ttgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcttctcttcagtttgtctagtctatccattccaaatcctatgacgcgtttttttctgtcttgtttttttcttgctagTGGGCCTGCTGTGATGTTCATGTGAAGGAGTTTGACGAGTTCCTGGAGATCCCGCCGTGCTCGAAAGGCTGGCACAGCAGCCAATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC