Sequence
atgc intronic sequence ATGC exonic sequencegttggtttaattttggtacttcaatgtaattgtggtgtcaccatcaatagcttccgccgactgctgtgttcttctgcttgtgttattttacttttcttttttatggcattctctcctatttattgcatttcatttgtttggattttgtcatgattctagGGCCGACGAGGAACCTGTTGATCAGAAGAGATATCTTGAAGAGTCTTGCAAACCAAAATGTGTAAAACCATTACTAGAATACCAG
Basic information
species | Glycine max |
transcript | GLYMA08G19380.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G19380.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G122039_T02 (Zea mays), 3'ss of exon 1
gttggtttaattttggtacttcaatgtaattgtggtgtcaccatcaatagcttccgccgactgctgtgttcttctgcttgt-gttattttacttttcttttttatggcattctctcctatt-tattgcatttcatttgtttggattttgtcatgattctagGGCCGACGAGGAACCTGTTGATCAGAAGAGATATCTTGAAGAGTCTTGCAAACCAAAATGTGTAAAACCATTACTAGAATACCAG---------------
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-------------------------------------------------------------ttcactgcacaacggccggtcgtcactagaatgttttgaaccgctcccctttttcctcctgtctcaagttccatgctttcctaatgttgctctatctcagGGAGGACGAGGAACTTGTTGATCAGAAGAAATATCTTGAGGAACGATGCAAGCCGCAATGTGTAAAATCACTTTACGAATATGAGGTCTGCCTCCTTGGA
upper sequence: GLYMA08G19380.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G122039_T07 (Zea mays), 3'ss of exon 1
gttggtttaattttggtacttcaatgtaattgtggtgtcaccatcaatagcttccgccgactgctgtgttcttctgcttgt-gttattttacttttcttttttatggcattctctcctatt-tattgcatttcatttgtttggattttgtcatgattctagGGCCGACGAGGAACCTGTTGATCAGAAGAGATATCTTGAAGAGTCTTGCAAACCAAAATGTGTAAAACCATTACTAGAATACCAG
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-------------------------------------------------------------ttcactgcacaacggccggtcgtcactagaatgttttgaaccgctcccctttttcctcctgtctcaagttccatgctttcctaatgttgctctatctcagGGAGGACGAGGAACTTGTTGATCAGAAGAAATATCTTGAGGAACGATGCAAGCCGCAATGTGTAAAATCACTTTACGAATATGAG
upper sequence: GLYMA08G19380.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G01090.2 (Arabidopsis thaliana), 3'ss of exon 2
gttggtttaattttggtacttcaatgtaattgtggtgtcaccatcaatagcttccgccgactgctgtgttcttctgcttgtgttattttacttttcttttttatggcattctctcctatttattgcatttcatttgtttggattttgtcatgattctagGGCCGACGAGGAACCTGTTGATCAGAAGAGATATCTTGAAGAGTCTTGCAAACCAAAATGTGTAAAACCATTACTAGAATACCAG
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----------------------------------------------------aacaaaaattgctatgtcat--agttatgaacgttttattcgttccttagtttgc---ttatctaacctttgattttccatcctactcgatg--gttataattacagGCCAGAAGAAGATGTTGTTGATCAGAAAAGATACTTTGAGGAATCTTGCAAACCAAAATGTGTGAAGCCACTACTTGAATATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcattctctcctatttattgcatttcatttgtttggattttgtcatgattctagGGCCGACGAGGAACCTGTTGATCAGAAGAGATATCTTGAAGAGTCTTGCAAACCAAAATGTGTAAAACCATTACTAGAATACCAG
tatttattgcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtttaattttggtacttcaatgtaattgtggtgtcaccatcaatagcttccgccgactgctgtgttcttctgcttgtgttattttacttttcttttttatggcattctctcctatttattgcatttcatttgtttggattttgtcatgattctagGGCCGACGAGGAACCTGTTGATCAGAAGAGATATCTTGAAGAGTCTTGCAAACCAAAATGTGTAAAACCATTACTAGAATACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA