Sequence
atgc intronic sequence ATGC exonic sequencegtataattattttccccgtttaaatgatttgctcaatgtaaaatctagaaacttcttatatttccaatttaatgtggttattaacacttggtgtttatgatgagcagTATTATTTAAAAACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCTAAAAATGGAGGTGAATATTTAAGCCAAGCTCCACTAAATGTTT
Basic information
species | Glycine max |
transcript | GLYMA10G02540.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G02540.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G47850.2 (Arabidopsis thaliana), 3'ss of exon 3
gtataattattttccccgtttaaatgatttgctcaatgtaaaatctagaaacttcttatatttccaatttaatgtggttattaacacttggtgtttatgatgagcagTATTATTTAAAAACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCTAAAAATGGAGGTGAATATTTAAGCCAAGCTCCACTAAATGTTT
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-----gtaacccaccccgaccag-tcattttatatgttccaagtgatgaaaca----aggttt-----tttgtgatattattgat-ctctgctttcctg----gcagTTTTACTTGAAAACTGGAACTTGTAAATTTGGGGCGTCATGCAAATTCCACCATCCAAAGAATGCAGGTGGATCCATGAGCCACGTTCCACTAAATATAT
upper sequence: GLYMA10G02540.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------------------------------gtataattattttccccgtttaaatgatttgc-tcaatgtaaaatctagaaacttcttatatttccaatttaatgtggttattaa-cacttggtgtttat---gatgagcagTATTATTTAAAAACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCTAAAAATGGAGGTGAATATTTAAGCCAAGCTCCACTAAATGTTT
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gtatgttgttgtttgttgactgaatataaaatactggatggggatggaatgcttgatctctaccaatatagattccttggatctgctagaattgttttcatctacttgtattatgcattattattaaggctt-attatcctatacttattaatcgtatagttattccttaaatatgcagTTTTATTTGAAGACTGGGACCTGTAAATTTGGTGCGTCCTGCAGGTTTCACCATCCAAGAAATGGTGGTGGATCCATGAGCCATGTGTCACTAAATATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttatatttccaatttaatgtggttattaacacttggtgtttatgatgagcagTATTATTTAAAAACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCTAAAAATGGAGGTGAATATTTAAGCCAAGCTCCACTAAATGTTT
tattaac putative branch site (score: 1)
atatttccaatttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataattattttccccgtttaaatgatttgctcaatgtaaaatctagaaacttcttatatttccaatttaatgtggttattaacacttggtgtttatgatgagcagTATTATTTAAAAACTGGAACCTGTAAATTTGGTGCATCCTGTAAATTCCACCATCCTAAAAATGGAGGTGAATATTTAAGCCAAGCTCCACTAAATGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT