Sequence
atgc intronic sequence ATGC exonic sequencegtatgtaacatttgtcttaatttatttctctgtgattgtttatgatagagtttaatattttatggtttgtttttgtgctaatcttttagGAATTTAGCACCAAGAACAAGTTGCTTATCACCGGTACTCCTCTACAGAACAGTGTGGAAGAACTATG
Basic information
species | Glycine max |
transcript | GLYMA14G03780.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G141258_T01 (Zea mays), 3'ss of exon 13
gtatgtaacatttgtcttaatttatttctc-tgtgattgtt--tatgatagagtttaatattttatggtttgtttttgtgctaatcttttagGAATTTAGCACCAAGAACAAGTTGCTTATCACCGGTACTCCTCTACAGAACAGTGTGGAAGAACTATG
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gtatgaaacaatt-tcttagtttctgcatcatgtaacttttactgggataatgattagactaattttgtat-tgcctctactgctctac-agGAATTCAGCACTAAGAACAAGCTGCTTATCACGGGAACACCTTTGCAGAACAGTGTGGAAGAGCTTTG
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G010342_T01 (Zea mays), 3'ss of exon 12
gtatgtaacatttgtcttaatttatttctctgtgattgtttatgatagagtttaatattttatggtttgtttttgtgctaatcttttagGAATTTAGCACCAAGAACAAGTTGCTTATCACCGGTACTCCTCTACAGAACAGTGTGGAAGAACTATG
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gtatgaaacaatt-ttttagcttctggatcacacaacttttatt---gggattaatgact---agactgattttgtattgcttctacagGAATTCAGCACTAAGAATAAGCTGCTTATCACTGGAACACCTTTGCAGAACAGTGTGGAAGAGCTTTG
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 13
lower sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 14
gtatgtaacatttgtcttaatttatttct-ctgtgattgtttatgatagagtttaatattttatggtttgtttttgtgctaatcttttagGAATTTAGCACCAAGAACAAGTTGCTTATCACCGGTACTCCTCTACAGAACAGTGTGGAAGAACTATG
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gtatgtgacttttttaagaacttttatctattttcatggttctttttttggtt--gttcataatgggtggcatatcttatc-tgttttagGAATTTAGCACGAAGAACAAATTGCTTATTACTGGTACTCCACTACAGAATAGTGTCGAAGAGCTTTG
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 13
----------------------------------------------------------------------------------------------gtatgtaacatttgtcttaatt-tatttctctgtgattgtttatgatagagtttaatattttatggtttgtttttgtgctaatctttt--agGAATTTAGCACCAAGAACAAGTTGCTTATCACCGGTACTCCTCTACAGAACAGTGTGGAAGAACTATG
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gtatgctgtatttcttaatgatatgtttacgttggccttttatttatgaagcacaatagtaaacaatcctctgggtacacatatttcattataattttctggcttttgtcttttcaataaataatatttatttttgttgatgagtcttatttggttaatgctagatgatgccttgcttttctgcagGAATTCAGTGCCAAGAACAAGTTGCTGATCACTGGTACTCCATTACAGAACAGTGTTGAAGAGCTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtttatgatagagtttaatattttatggtttgtttttgtgctaatcttttagGAATTTAGCACCAAGAACAAGTTGCTTATCACCGGTACTCCTCTACAGAACAGTGTGGAAGAACTATG
tgctaat putative branch site (score: 2)
tctttt CT-rich tract
ttatgatagagtttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtaacatttgtcttaatttatttctctgtgattgtttatgatagagtttaatattttatggtttgtttttgtgctaatcttttagGAATTTAGCACCAAGAACAAGTTGCTTATCACCGGTACTCCTCTACAGAACAGTGTGGAAGAACTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC