Sequence
atgc intronic sequence ATGC exonic sequencegtatgatttagttgtcaactaattttttatttattatattttcgtattttggaagtactcatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACGGGCTCGCATGTGGAATATGACCAAAGGCCAGATGTTTTCAG
Basic information
species | Glycine max |
transcript | GLYMA07G01890.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S251_2V6.1 (Physcomitrella patens), 3'ss of exon 5
---gtatgatttagttgtcaactaattt--tttatttattatattttcgtattttggaagtactcatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACGGGCTCGCATGTGGAATATGACCAAAGGCCAGATGTTTTCAG
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gaagagcatctggactgagaattggatgagtttattaccgctacgtccatgcacaagtcaatttcataccaagattaatgtctttctcctatatatgcagCTACTCGATGGAGGGATGGTACAACCGGTCAGCATGTAGAATATGACCAAAGGCCTGATGTGTTCCG
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S176_7V6.1 (Physcomitrella patens), 3'ss of exon 6
-------gtatgatttagttgtcaactaattttttatttattatattttcgtattttggaagtactcatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACGGGCTCGCATGTGGAATATGACCAAAGGCCAGATGTTTTCAG
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gaagagcatctggactgagaattggatgagtttattaccgctacgtccatgcacaagtcaatttcacaccaa--gattaacgtctttctcccatatatgcagCTACTCGATGGAGGGATGGTACAACCGGTCAGCATGTAGAATATGACCAAAGGCCTGATGTGTTTCG
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 3'ss of exon 7
---gtatgatttagttgtcaactaattt--tttatttattatattttcgtattttggaagtactcatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACGGGCTCGCATGTGGAATATGACCAAAGGCCAGATGTTTTCAG
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gaagtgcatttggactaagaattagatgagtttattaccactacgttcatacacaagtcaatttcacactaagattaacgtctttctcccatatgtgaagCTACTCGATGGAGGGATGGTACAACCGGTCAGCATGTAGAATATGACCAAAGGCCTGATGTGTTCCG
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S360_49V6.1 (Physcomitrella patens), 3'ss of exon 7
-------gtatgatttagttgtcaactaattttttatttattatattttcgtattttggaagtactcatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACGGGCTCGCATGTGGAATATGACCAAAGGCCAGATGTTTTCAG
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gaagagcatctggactgagaattggatgagtttattaccgctacgtccatgcacaagtcaatttcacaccaa--gattaacgtctttctcccatatatgcagCTACTCGATGGAGGGATGGTACAACCGGTCAGCATGTAGAATATGACCAAAGGCCTGATGTGTTCCG
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S210_32V6.1 (Physcomitrella patens), 3'ss of exon 5
---gtatgatttagttgtcaactaattt--tttatttattatattttcgtattttggaagtactcatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACGGGCTCGCATGTGGAATATGACCAAAGGCCAGATGTTTTCAG
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gaagagtatctagactaagaattgaatgaatttattactgctatgtccatatacaagtcaattttatatcaagattaatatctttcttccatatatacagCTACTCAATGGAGGGATGATACAACCGGTCAGCATGTAGAATATGACCAAAGGCCTGATGTGTTCCAMapped 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|213588365|gb|DB967851.1|DB967851EST: TCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAG CTACTAAGTGGGAGGGATAGTACAACAGGCTCGCATGTG
genomic: TCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAGgtatgattta ... gggcttacagCTACTAAGTGG-AGGGATAGTACAACGGGCTCGCATGTG
EST:
gi|192326672|gb|FK018514.1|FK018514EST: TCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAG CTACTAAGTGGAGGG
genomic: TCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAGgtatgattta ... gggcttacagCTACTAAGTGGAGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcgtattttggaagtactcatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACGGGCTCGCATGTGGAATATGACCAAAGGCCAGATGTTTTCAG
tactcac putative branch site (score: 1)
tatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatttagttgtcaactaattttttatttattatattttcgtattttggaagtactcatttactcacttcctttgctattttgggcttacagCTACTAAGTGGAGGGATAGTACAACGGGCTCGCATGTGGAATATGACCAAAGGCCAGATGTTTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG