Sequence
atgc intronic sequence ATGC exonic sequencegtctactctattgtcctttgcctttcaataagagtactctgaactcattcatgttttagaaattctaatcatgtacagtcattaaagtagcttctactgacttttgtattggctaccttctttgagtagTCTCTTCCAGTTGCTTTTGGTTCTGAAACTGCAAAGTGGATATGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCTG
Basic information
species | Glycine max |
transcript | GLYMA07G18470.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G18470.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g28200.1 (Oryza sativa), 3'ss of exon 11
gtctactctattgtcctttgcctttcaataagagtactctgaactcattcatgttttagaaattctaatcatgtacagtcattaaagtagcttctactgacttttgtattggctaccttctttgagtagTCTCTTCCAGTTGCTTTTGGTTCTGAAACTGCAAAGTGGATATGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCTG
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------------gttcttcttctgtctgta-gtgtagagttatcacagcccttttct-gtagttccaaagaaaagcaatcatcca---------------------tatcacttacctttttt---cagTCACTCCCGGTTGCTTTTGGTATGGAAACTGCAAAGTGGATATGTGTAGGAGCGATTGACATAACTCAATTATCCGTTGCAG
upper sequence: GLYMA07G18470.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g28200.2 (Oryza sativa), 3'ss of exon 10
-gtctactctattgtcctttgcctttcaataagagtactctgaactcattcatgttttagaaattctaatcatgtacagtcattaaagtagcttctactgacttttgtattggctaccttctttgagtagTCTCTTCCAGTTGCTTTTGGTTCTGAAACTGCAAAGTGGATATGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCTG
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gggcttcaggttcttcttctgtctgtagtgtagagttatcacagcccttttctgt------agttccaaagaaaagcaatcatcca---------------------tatcacttacctttttt---cagTCACTCCCGGTTGCTTTTGGTATGGAAACTGCAAAGTGGATATGTGTAGGAGCGATTGACATAACTCAATTATCCGTTGCAG
upper sequence: GLYMA07G18470.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G162672_T02 (Zea mays), 3'ss of exon 11
gtctactctattgtcctttgcctttcaataagagtactctgaactcattcatgttttagaaattctaatcatgtacagtcattaaagtagc--ttctactgacttttgtattggctaccttctttgagtagTCTCTTCCAGTTGCTTTTGGTTCTGAAACTGCAAAGTGGATATGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCTG
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-------------------------------------gttatactctttttttttgtgtaaatatttatcattaacgtgcttctcaataacagtttcactttttttaaaaatgttttaaatttt---gtagTCACTTCCTGTTGCTTTTGGGATGGAAACTGCAAAATGGATTTGTGTTGGAGCAATTGATATCACTCAATTATCTGTTGCAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|15589810|gb|BI674426.1|BI674426EST: TTGTCAATGACTTCAAAAGTGTTGAAGGGGATAGGGCTCTAGGGCTTCAG TCTCTTCCAGTTGCTTTTGGTGCTGAAACTGCAAAGTGGATCTGTGTTGGC
genomic: TTGTCAATGACTTCAAAAGTGTTGAAGGGGATAGGGCTCTAGGGCTTCAGgtctactcta ... ctttgagtagTCTCTTCCAGTTGCTTTTGGTTCTGAAACTGCAAAGTGGATATGTGTTGGC
EST:
gi|16276808|gb|BI942055.1|BI942055EST: TTGTCAATGACTTCAAAAGTGTTGAAGGGGATAGGGCTCTAGGGCTTCAG TCTCTTCCAGTTGCTTTTGGTTCTGAAACTGCAAAGTGGATATGTGTT
genomic: TTGTCAATGACTTCAAAAGTGTTGAAGGGGATAGGGCTCTAGGGCTTCAGgtctactcta ... ctttgagtagTCTCTTCCAGTTGCTTTTGGTTCTGAAACTGCAAAGTGGATATGTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagtcattaaagtagcttctactgacttttgtattggctaccttctttgagtagTCTCTTCCAGTTGCTTTTGGTTCTGAAACTGCAAAGTGGATATGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCTG
tactgac putative branch site (score: 1)
ctaccttcttt putative PPT
attaaagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctactctattgtcctttgcctttcaataagagtactctgaactcattcatgttttagaaattctaatcatgtacagtcattaaagtagcttctactgacttttgtattggctaccttctttgagtagTCTCTTCCAGTTGCTTTTGGTTCTGAAACTGCAAAGTGGATATGTGTTGGCGCTATTGACATTACACAATTATCTGTAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA