Sequence
atgc intronic sequence ATGC exonic sequence...attcaggatctttagtctttacatatttgtattttattttctttttatgtcgtaagttgaaattttcaattccgtaaggttctattctatccatcttcagGATGCTATGGAATATGCAGAATGTGAAGCTGTTGTTAAAGATTTCCCTCCATTTAGAGAGGCTATGAAGAAAAGGGGCATTGAAGACATGGATCTTGTAA
Basic information
species | Glycine max |
transcript | GLYMA17G09290.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g38010.1 (Oryza sativa), 3'ss of exon 3
---attcaggatctttagtctttacatatttgtat-tttattttctttttatgtcgtaagttgaaattttcaattccgtaaggttctattc-tatccatcttcagGATGCTATGGAATATGCAGAATGTGAAGCTGTTGTTAAAGATTTCCCTCCATTTAGAGAGGCTATGAAGAAAAGGGGCATTGAAGACATGGATCTTGTAA
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gaaacttagtttgatgcttactttgatagttaagcacttagtgaatacttatat--taggtc--aattactagatttatcttgtagtgcttgtgtgtat-tacagGATGCCATGGAATATGCTGAATGTGAAGCTACTGTGAAAAGTCACCCCCCTTTCATTGAAGCAATGAAAAAAAGAGGAGTTGATGACATGGATCTTGTCA
upper sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 4
attcaggatctttagtctt----tacatatttgtattttattttctttttatgtcgtaagttgaaattttcaattccgtaaggttctattctatccatctt-cagGATGCTATGGAATATGCAGAATGTGAAGCTGTTGTTAAAGATTTCCCTCCATTTAGAGAGGCTATGAAGAAAAGGGGCATTGAAGACATGGATCTTGTAA
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-tttccgatatttatgcttgtattaca-gcttgaactgttttttcttttgaagtttt---ttagaaccttttggagcgctcagttcaaatttctatatttcacagGATGCTATGGAGTATGCTGAATGTGAAGCTACTGTCAAAAGCTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTAGATGACATGGAACTTGTCA
upper sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 3
-attcaggatctttagtctttacatatttgtattttattt-tctttttatgtcgtaagttgaaattttcaattccgtaaggttctattctatccatcttcagGATGCTATGGAATATGCAGAATGTGAAGCTGTTGTTAAAGATTTCCCTCCATTTAGAGAGGCTATGAAGAAAAGGGGCATTGAAGACATGGATCTTGTAA
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aatttatggaagcta-tgagaagtggtgtggatggcatggatcgtgttactcaactattttaaaattttatctgctatttatttttttttatct-ttgacagGATGCTATGGAGTATGCTGAATGTGAGGCTACTGTCAAAAGTTATCCTCCATTTATTGAAGCTATGAAGAGAAGAGGTGTGGATGACATGGATCTTGTTA
upper sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 3
----attcaggatctttagtctttacatatttgtattttattttctt-tttatgtcgtaagttgaaattttcaattccgtaaggttctattctatccatcttcagGATGCTATGGAATATGCAGAATGTGAAGCTGTTGTTAAAGATTTCCCTCCATTTAGAGAGGCTATGAAGAAAAGGGGCATTGAAGACATGGATCTTGTAA
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ccatcttaggcagctggtatttttttacactgttactttgatgtatcacttatattttcat---gagttgtcattgttcaaatttactgtctt--ccaattgtagGATGCTGTGGAATATGCTGAATGTGAAGCTGTTGTCAAAGACTGTCCTCTGTTTCGAGAGGCAATGAAGAAGAGGGGTGTGGAGGATATGGACCTTGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgtcgtaagttgaaattttcaattccgtaaggttctattctatccatcttcagGATGCTATGGAATATGCAGAATGTGAAGCTGTTGTTAAAGATTTCCCTCCATTTAGAGAGGCTATGAAGAAAAGGGGCATTGAAGACATGGATCTTGTAA
ttctatccatcttc CT-rich tract
ttgaaattttcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attcaggatctttagtctttacatatttgtattttattttctttttatgtcgtaagttgaaattttcaattccgtaaggttctattctatccatcttcagGATGCTATGGAATATGCAGAATGTGAAGCTGTTGTTAAAGATTTCCCTCCATTTAGAGAGGCTATGAAGAAAAGGGGCATTGAAGACATGGATCTTGTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caattcc