Sequence
atgc intronic sequence ATGC exonic sequence...tgtattcttatggatattttgattttttctacaaatgactgctgaacaaaaatttaatggtggattcatgatgacactactgtctccatttctgctgtagGTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTCCTGCGTCCTGGGAGATTGGATAGAAAAATAGAAATCCCTCTGCCTAATG
Basic information
species | Glycine max |
transcript | GLYMA04G03180.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G03180.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0001g13090.t01 (Vitis vinifera), 3'ss of exon 7
tgtattcttatggatattttgattttttctacaaatgac----tgctgaacaaaaatttaatggtggattcatgatgacactactgtctccatt-tctgctgtagGTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTCCTGCGTCCTGGGAGATTGGATAGAAAAATAGAAATCCCTCTGCCTAATG
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---gtgcaggtgt-tatctgtgcattttttgcagctgacattttcattcataagcttttcttagtaaactaaaaa-aatattattttgaaatttgtttgatatagGTTAAAATGATTATGGCAACAAACCGGCCTGATGTTCTTGACCCTGCACTTCTTCGTCCTGGGCGATTAGACAGAAAGATAGAGATTCCATTGCCAAATG
upper sequence: GLYMA04G03180.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S47_46V6.2 (Physcomitrella patens), 3'ss of exon 7
--------------------------tgtattc-----ttatggatattttgattttttctacaaa----tgactgctgaacaaaaatttaatggtggattcatgatgacactactgtc-tccatttctgctgtagGTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTCCTGCGTCCTGGGAGATTGGATAGAAAAATAGAAATCCCTCTGCCTAATG
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gtactcttgactcttgaaaccattctggtattcattggctttggcttttctgctgatctgcaagaagttgtatatatgaatcacgtgtgtgctagccgattctttatctccttgtttacatggaatatggatgcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTGCTCCGGCCTGGCCGTTTGGATCGAAAAATTGAAATTCCACTGCCTAATG
upper sequence: GLYMA04G03180.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S13_419V6.1 (Physcomitrella patens), 3'ss of exon 7
tgtattcttatggatattttgattttttctacaa----atgactgctgaacaaaaatttaatggtggattcatgatgaca-ctactgtctccatttctgctgtagGTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTCCTGCGTCCTGGGAGATTGGATAGAAAAATAGAAATCCCTCTGCCTAATG
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-gtagacctggaaaaatttctgtcaatgccacgttgccataa-tagtgatcatagattt--cgaggaaacaccgttgatagttgccaacatc-ttgtcattatagGTAAAGATGATCATGGCAACCAACCGGCCAGATGTTCTTGACCCTGCTCTTCTACGACCTGGTCGTTTGGATCGAAAGATTGAAATTCCACTACCAAATGMapped 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|208088440|gb|GD890728.1|GD890728EST: CGCTAATGGAGCTGCTTAATCAACTTGATGGATTTGATCAACTTGGAAAG GTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTC
genomic: CGCTAATGGAGCTGCTTAATCAACTTGATGGATTTGATCAACTTGGAAAGgtatatttaa ... tctgctgtagGTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaaaaatttaatggtggattcatgatgacactactgtctccatttctgctgtagGTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTCCTGCGTCCTGGGAGATTGGATAGAAAAATAGAAATCCCTCTGCCTAATG
atttaat putative branch site (score: 4)
ctgtctccatttct putative PPT
aatttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtattcttatggatattttgattttttctacaaatgactgctgaacaaaaatttaatggtggattcatgatgacactactgtctccatttctgctgtagGTTAAAATGATAATGGCAACAAACCGACCTGATGTACTTGACCCTGCTCTCCTGCGTCCTGGGAGATTGGATAGAAAAATAGAAATCCCTCTGCCTAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
tgtattc
- - - - - - - - - - - - - - - - - - - ctgctga
- - - - - - - - - - - - - - - - - - - - - - -acaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgac