Sequence
atgc intronic sequence ATGC exonic sequencegtatgtaacatttctcttaatttatttttgtgcaattgtttatgatagagtttattttttatggtttgtttttttgctaatcttttagGAATTTAGCACCAAGAACAAATTGCTTATCACTGGCACTCCTCTACAGAACAGTGTGGAAGAACTATG
Basic information
species | Glycine max |
transcript | GLYMA02G45000.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G010342_T01 (Zea mays), 3'ss of exon 12
gtatgtaacatttctcttaatttatttttgtgcaattgtttatgatagagtttattttttatggtttgtttttttgctaatcttttagGAATTTAGCACCAAGAACAAATTGCTTATCACTGGCACTCCTCTACAGAACAGTGTGGAAGAACTATG
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gtatgaaacaattttttagcttctggatcacacaactttt----attgggattaatgacta--gactgattttgtattgcttctacagGAATTCAGCACTAAGAATAAGCTGCTTATCACTGGAACACCTTTGCAGAACAGTGTGGAAGAGCTTTG
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G141258_T01 (Zea mays), 3'ss of exon 13
gtatgtaacatttctcttaatttattt-ttgtgcaattgtttatgatagagtttattttttatggtttgtttttttgctaatctttt--agGAATTTAGCACCAAGAACAAATTGCTTATCACTGGCACTCCTCTACAGAACAGTGTGGAAGAACTATG
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gtatgaaacaatt-tcttagtttctgcatcatgtaacttttactgggataatgattagacta-attttgtattgcctctactgctctacagGAATTCAGCACTAAGAACAAGCTGCTTATCACGGGAACACCTTTGCAGAACAGTGTGGAAGAGCTTTG
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 13
lower sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 14
gtatgtaacatttctcttaatttatttttgtgcaattgtttatgatagagtttattttttatggtttgtttttttgctaatcttttagGAATTTAGCACCAAGAACAAATTGCTTATCACTGGCACTCCTCTACAGAACAGTGTGGAAGAACTATG
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gtatgtgacttttttaagaacttttatctattttcatggttctttttttggttgttcataatgggtggcatatcttatc-tgttttagGAATTTAGCACGAAGAACAAATTGCTTATTACTGGTACTCCACTACAGAATAGTGTCGAAGAGCTTTG
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 13
----------------------------------------------------------------------------------------------gtatgtaacattt--ctcttaatttatttttgtgcaattgtttatgatagagtttattt--tttatggtt--tgtttttttgctaatcttttagGAATTTAGCACCAAGAACAAATTGCTTATCACTGGCACTCCTCTACAGAACAGTGTGGAAGAACTATG
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gtatgctgtatttcttaatgatatgtttacgttggccttttatttatgaagcacaatagtaaacaatcctctgggtacacatatttcattataattttctggcttttgtcttttcaataaataatattta-tttttgttgatgagtcttatttggttaatgctagatgatgccttgcttttctgc-agGAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattgtttatgatagagtttattttttatggtttgtttttttgctaatcttttagGAATTTAGCACCAAGAACAAATTGCTTATCACTGGCACTCCTCTACAGAACAGTGTGGAAGAACTATG
tgctaat putative branch site (score: 2)
tctttt CT-rich tract
agtttattttttatgg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtaacatttctcttaatttatttttgtgcaattgtttatgatagagtttattttttatggtttgtttttttgctaatcttttagGAATTTAGCACCAAGAACAAATTGCTTATCACTGGCACTCCTCTACAGAACAGTGTGGAAGAACTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC