Sequence
atgc intronic sequence ATGC exonic sequence...tcatataccttttactttcactgcattagtaacatacatatgatatttcatcatgcttgaatttatgttcctcaatatgtatggctacattatatggcagGTATGTGCATGGGGATGTGAAGCCTGAAAATTTTCTGCTTGGTGCTCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAG
Basic information
species | Glycine max |
transcript | GLYMA07G01890.1 |
intron # | 6 |
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 6
lower sequence: LOC_Os01g54100.2 (Oryza sativa), 3'ss of exon 5
tcatataccttttactttcactgcattagtaacatacatatgatatttcatcatgcttgaatttatgttcctcaatatgtatggctacattatatggcagGTATGTGCATGGGGATGTGAAGCCTGAAAATTTTCTGCTTGGTGCTCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAG
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----gttggttgccatctctcta-attattattatcccctccccaccaaaatacattttatttcctctgttgtaatagaaaatgttttgcaatc--gcagATATGTTCATGGGGATGTGAAACCTGAAAATTTCTTGCTAGGGCCTATTGGAACTCCTGAAGAAAAGAGACTCTTCCTTGTCGATCTTGGTTTAG
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G116151_T03 (Zea mays), 3'ss of exon 6
tcatataccttttactttcactgcattagtaacatacatatgatatttcatcatgcttgaatttatgttcctcaatatgtatggctacattatatggcagGTATGTGCATGGGGATGTGAAGCCTGAAAATTTTCTGCTTGGTGCTCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAG
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----gtacctgatgtagtc----tagtcaaaggata-gtaatatattttgt-atact-gtgtatagaatgatagctaaagaaatctcttgtttatgatagGTACGTCCATGGAGATGTGAAGCCTGAAAATTTTTTGCTTGGACCTCCAGGCACCCTACAAGAGAAGAAACTTTTTCTCGTTGACCTTGGTTTAG
upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G045259_T02 (Zea mays), 3'ss of exon 6
tcatataccttttactttcactgcattagtaacatacatatgatatttcatcatgcttgaatttatgttcctcaatatgtatggctacattatatggcagGTATGTGCATGGGGATGTGAAGCCTGAAAATTTTCTGCTTGGTGCTCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAG
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--gtgatctgctttctgttgttgagatggaactttttttcttatatg--gttgt-tttaaaagtggatctcataagatgcgta-------tatgacacagGTATGTCCATGGTGATGTGAAGCCTGAGAACTTCTTGCTTGGTCCTCCTGGTACCCCAGAGGAGAAGAAGCTTTTTCTTGTTGACCTTGGATTGGMapped 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|192326672|gb|FK018514.1|FK018514EST: TGTATTGCCATTGAAGCAATATCTATATTGGAAAAAATGCACTCTCGAGG GTATGTGCATGGGGATGTGAAGCCTGAAAATTTTCTGCTTGGTGCTCCTGG
genomic: TGTATTGCCATTGAAGCAATATCTATATTGGAAAAAATGCACTCTCGAGGgtaattttca ... tatatggcagGTATGTGCATGGGGATGTGAAGCCTGAAAATTTTCTGCTTGGTGCTCCTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcatcatgcttgaatttatgttcctcaatatgtatggctacattatatggcagGTATGTGCATGGGGATGTGAAGCCTGAAAATTTTCTGCTTGGTGCTCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAG
ttgaatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatataccttttactttcactgcattagtaacatacatatgatatttcatcatgcttgaatttatgttcctcaatatgtatggctacattatatggcagGTATGTGCATGGGGATGTGAAGCCTGAAAATTTTCTGCTTGGTGCTCCTGGGACACCTGATGAGAAAAAATTGTTCCTTGTAGATCTGGGATTAG
-catatac
- - - - - - - - - cactgca
- - - - - - - - - - - - - - - - catacat
- - - - - - - - - - - - - - - - - - - - - - - - - tcatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggctac