Sequence
atgc intronic sequence ATGC exonic sequencegtatcatgcttttactctgtctgagttgattaatgatgtgcttatttttaatgatctcttctgaaccttgtttttttattgggcagGCGAGTACTCATTTTCCCAAAAGGGAACAACGTGGACTATTTGTCCATGTATTTGGATGTTGCAGATTCAGCTAGTTTGCCCTATGGCTGGAGTAGATAT
Basic information
species | Glycine max |
transcript | GLYMA02G43930.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 3
-----gtatcatgcttttactctgtctga----------gttgattaatgatgtgctta---tttttaatgatctcttctgaaccttgtttttttattgggcagGCGAGTACTCATTTTCCCAAAAGGGAACAACGTGGACTATTTGTCCATGTATTTGGATGTTGCAGATTCAGCTAGTTTGCCCTATGGCTGGAGTAGATAT
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gtaacatatctcgcggtcgcggttcctagtggaaatgcggttaccttgggacttgcttgaagcgcggagggttttgatatagatgttctgcctttgc-gtgtagGCGTGTGCTGATTTTCCCTAAGGGGAACAATGTGGACCATTTCTCTATGTATTTGGATGTCGCGGACTCGGTGAATCTCCCTTATGGATGGAACCGGTAT
upper sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 3
------------gtatcatgcttttactctgtctgagttgatt-aatgatgtgcttatttttaatgatctcttctgaaccttgtttttttattgggcagGCGAGTACTCATTTTCCCAAAAGGGAACAACGTGGACTATTTGTCCATGTATTTGGATGTTGCAGATTCAGCTAGTTTGCCCTATGGCTGGAGTAGATAT
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gtgagcttttggatctcttctcttgccactgtaactgctgacggaaacatgggtaaatgtttggtgggttttaatggatgtgctactttttgcttgcagGCGTGTCCTAATTTTCCCCAAGGGGAACAATGTGGATCACTTCTCGATGTATTTGGATGTTGCAGATTCTGGGAACCTCCCATACGGGTGGAGCCGGTAT
upper sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------------------------gtatcatgctt-ttactctgtctgagttgattaatgatgtgcttatttttaat--gatctcttctgaaccttgtttttttattgggcagGCGAGTACTCATTTTCCCAAAAGGGAACAACGTGGACTATTTGTCCATGTATTTGGATGTTGCAGATTCAGCTAGTTTGCCCTATGGCTGGAGTAGATAT
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gtattttaattttttttcatccaaaatggcattattgttattattattatcatcatcatcttcattattattattgttgttgttgctataaccattattcttcatatggctagtgccaatcctcataattgatttgaacagGCGGGTGCTTATTTTTCCAAAGGGAAACAATGTTGAACATTTGTCTATGTACTTGGATGTTGCGGATTCATCAAGTTTGCCCTATGGGTGGAGTAGATATMapped 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|193354658|gb|FK323310.1|FK323310EST: ATACAAAGAAGCTCTATTCAGAAATATTTGTTGTTGGTAGGTTATAAATG GCGAGTACTCATTTTCCCAAAAGGGAACAACGTGGACTATTTGTCCATGTA
genomic: ATACAAAGAAGCTCTATTCAGAAATATTTGTTGTTGGT-GGTTATAAATGgtatcatgct ... tattgggcagGCGAGTACTCATTTTCCCAAAAGGGAACAACGTGGACTATTTGTCCATGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgatgtgcttatttttaatgatctcttctgaaccttgtttttttattgggcagGCGAGTACTCATTTTCCCAAAAGGGAACAACGTGGACTATTTGTCCATGTATTTGGATGTTGCAGATTCAGCTAGTTTGCCCTATGGCTGGAGTAGATAT
ttttaat putative branch site (score: 3)
ccttgtttttttatt putative PPT
ttatttttaatgatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcatgcttttactctgtctgagttgattaatgatgtgcttatttttaatgatctcttctgaaccttgtttttttattgggcagGCGAGTACTCATTTTCCCAAAAGGGAACAACGTGGACTATTTGTCCATGTATTTGGATGTTGCAGATTCAGCTAGTTTGCCCTATGGCTGGAGTAGATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA