Sequence
atgc intronic sequence ATGC exonic sequence...gttcctatagcaagctgcatatgattttaatctagtttaaatctatttgttgttgattaaatctactttacttcatgttcaatgctttctccaaatgtagGAAATATGGATTGGAAGATGATACGGTTGACTTTATTGGTCATGCCTTAGCACTTCATCGTGATGATAGTTACTTGGATGAACCAGCCAAGGATTTTGTA
Basic information
species | Glycine max |
transcript | GLYMA07G30050.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G084440_T01 (Zea mays), 3'ss of exon 5
----gttcctatagcaagctgc---atatgattttaatctagtttaaatctattt--gttgttgattaaatctactttacttcatgttcaatgctttctccaaatgtagGAAATATGGATTGGAAGATGATACGGTTGACTTTATTGGTCATGCCTTAGCACTTCATCGTGATGATAGTTACTTGGATGAACCAGCCAAGGATTTTGTA
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gtgagtcgtcgtcgcgcgctctttgatttcatttcacccagctgtgctgcggtttcagttgctagactagaatgtttgttgttgtcttggacgatcgatcga---gcagCAAATACGGATTGGAGGATGATACGGTCGACTTTATCGGGCATGCGCTAGCACTTCACCGGGACGACAGCTACCTTGACGAGCCTGCAATCGACACTGTC
upper sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 4
--gttcctatagcaagctgcatatgattttaatcta-gtttaaatctatttgttgttgattaaatctactttacttcatgttcaatgctttctccaaatgtagGAAATATGGATTGGAAGATGATACGGTTGACTTTATTGGTCATGCCTTAGCACTTCATCGTGATGATAGTTACTTGGATGAACCAGCCAAGGATTTTGTA
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tgactgtgatcatattttgcatttgattgctttctccatttagcaatgtgaattacagatttcat--agtttaatgcatgaa-gtttctcccttttgacatagAAAATATGGGCTGGAGGATGATACAATTGACTTCATTGGTCACTCATTGGCACTTCATAGTGATGATAGTTACTTGGATGAGCCAGCTATGGAATTTGTAMapped 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|192300573|gb|FG987940.1|FG987940EST: TCTCACGAAGGACTAGATCTGAACCAAGTTACAGCAAGGCAGTTGATATC GAAATATGGATTGGAAGATGATACGGTTGACTTTATTGGTCATGCCTTAGC
genomic: TCTCACGAAGGACTAGATCTGAACCAAGTTACAGCAAGGCAGTTGATATCgtatgcattt ... ccaaatgtagGAAATATGGATTGGAAGATGATACGGTTGACTTTATTGGTCATGCCTTAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttgttgattaaatctactttacttcatgttcaatgctttctccaaatgtagGAAATATGGATTGGAAGATGATACGGTTGACTTTATTGGTCATGCCTTAGCACTTCATCGTGATGATAGTTACTTGGATGAACCAGCCAAGGATTTTGTA
tgttgat putative branch site (score: 4)
tgctttctcc putative PPT
attaaatctacttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcctatagcaagctgcatatgattttaatctagtttaaatctatttgttgttgattaaatctactttacttcatgttcaatgctttctccaaatgtagGAAATATGGATTGGAAGATGATACGGTTGACTTTATTGGTCATGCCTTAGCACTTCATCGTGATGATAGTTACTTGGATGAACCAGCCAAGGATTTTGTA
gttccta
- - - - - - - -tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - gttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgct