Sequence
atgc intronic sequence ATGC exonic sequence...aatcaaattttaaaaaaaaaattagagactaaaaacttagttaatcattttcttttattccttttgtcttaattcctttttattttttcttctgatgcagTCAGGATGCTGCAAGCCACCAACAAAATGTGGTTACACATTTGTGAACCCAACGTATTGGATTAGCCCTATCAACACAGCAGAAGACATGGATTGCATGA
Basic information
species | Glycine max |
transcript | GLYMA08G36610.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G36610.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G46700.1 (Arabidopsis thaliana), 3'ss of exon 1
----aatcaaattttaaaaaaaaaattagagactaaaaacttagttaatcattttcttttattccttttgtcttaattcctttttattttttcttctgatgcagTCAGGATGCTGCAAGCCACCAACAAAATGTGGTTACACATTTGTGAACCCAACGTATTGGATTAGCCCTATCAACACAGCAGAAGACATGGATTGCATGA
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agattcttccactatgtgcacttaatcagtcacgccgaact-acttttttggccccaatattttatattatttaaatttaaccccatttctttactt---tcagTCTGGTTGCTGCAAGCCCCCAACAAAATGTGGATTCACATTTGTTAATCCTACTTATTGGATAAGTCCCATAGATATGTCTGCTGATATGGATTGTCTAA
upper sequence: GLYMA08G36610.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0012g01410.t01 (Vitis vinifera), 3'ss of exon 1
aatcaaattttaaaaaaaa---aattagagactaaaaacttagttaatcattttcttttattccttttgtcttaattcctttttattttttcttctgatgcagTCAGGATGCTGCAAGCCACCAACAAAATGTGGTTACACATTTGTGAACCCAACGTATTGGATTAGCCCTATCAACACAGCAGAAGACATGGATTGCATGA
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---agaagcgtaaagattcctcaaccatgtgttaatcttctttctttccaagtatggttcatctttatcttttatttcttttgcttttcttttttctttacagTCGGGATGCTGTAAGCCACCAACTGAATGCGGGTACACCTTTGTGAATCCGAGCTATTGGATTAGCCCCATATACACAGCAGCGGACATGGATTGCCTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttcttttattccttttgtcttaattcctttttattttttcttctgatgcagTCAGGATGCTGCAAGCCACCAACAAAATGTGGTTACACATTTGTGAACCCAACGTATTGGATTAGCCCTATCAACACAGCAGAAGACATGGATTGCATGA
ttctgat putative branch site (score: 3)
ttttattccttttgtc CT-rich tract
ttttgtcttaattcct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatcaaattttaaaaaaaaaattagagactaaaaacttagttaatcattttcttttattccttttgtcttaattcctttttattttttcttctgatgcagTCAGGATGCTGCAAGCCACCAACAAAATGTGGTTACACATTTGTGAACCCAACGTATTGGATTAGCCCTATCAACACAGCAGAAGACATGGATTGCATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - -aaaaaaa
- - - - - - - - - - - - - - -taaaaac