Sequence
atgc intronic sequence ATGC exonic sequence...gttgaaggttaattaaaatatgcgaattttagtttatcatggtcattttttctttatctgatttcttgcagaattcttttctgtatggtttattgttcagTGATTGTAGGAGAGGTTGCAAACTTCGTTGCATATGCATTTGCTCCAGCAGTCCTAGTTACTCCTCTTGGTGCATTAAGTATTATTGTGAGGTATTCCCC
Basic information
species | Glycine max |
transcript | GLYMA02G44980.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G44980.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g43790.3 (Oryza sativa), 3'ss of exon 2
gttgaaggttaattaaaatatgcg-aattttagtttatcatggtcattttttctttatctgatttcttgcagaattcttttctgtatggtttattgttcagTGATTGTAGGAGAGGTTGCAAACTTCGTTGCATATGCATTTGCTCCAGCAGTCCTAGTTACTCCTCTTGGTGCATTAAGTATTATTGTGAGGTATTCCCC
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gtaaggtttttctttttctttcttcgatttcagtagagca-gatgaagagcaatgtttattgagtagtgggtgattctgaactaagttctctcct-ttcagTGATTGTGGGAGAAGTTGCCAATTTCGTCGCATACGCCTTCGCTCCCGCGGTTCTTGTTACTCCTCTTGGAGCACTGAGCATAATTGTTAG---------
upper sequence: GLYMA02G44980.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 2
gttgaaggttaattaaaatatgcgaattttagtttatcatggtcattttttctttatctgatttcttgcagaattcttttc------tgtatggtttattgttcagTGATTGTAGGAGAGGTTGCAAACTTCGTTGCATATGCATTTGCTCCAGCAGTCCTAGTTACTCCTCTTGGTGCATTAAGTATTATTGTGAGGTATTCCCC
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----actcttaaccagtgtgag-gacacatgattcaccatggactttcgttcttca-ctgactgtttgcagaatatctcttgttgtatgtatgatttctgatgtagTGATTGTGGGAGAGGTTGCTAATTTTGTGGCATATGCATTCGCCCCAGCTGTTCTTGTTACCCCTCTTGGGGCATTAAGTATCATTGTCAG---------Mapped 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|7925553|gb|AW831588.1|AW831588EST: TGGTTATTATTATCTCTTGGAGCCACTATGGTGGGTGGGAATGATCACAA TGATTGTAGGAGAGGTTGCAAACTTCGTTGCATATGCATTTGCTCCAGCAG
genomic: TGGTTATTATTATCTCTTGGAGCCACTATGGTGGGTGGGAATGATCACAAgtaagcttta ... tattgttcagTGATTGTAGGAGAGGTTGCAAACTTCGTTGCATATGCATTTGCTCCAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttctttatctgatttcttgcagaattcttttctgtatggtttattgttcagTGATTGTAGGAGAGGTTGCAAACTTCGTTGCATATGCATTTGCTCCAGCAGTCCTAGTTACTCCTCTTGGTGCATTAAGTATTATTGTGAGGTATTCCCC
atctgat putative branch site (score: 4)
aattctttt 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgaaggttaattaaaatatgcgaattttagtttatcatggtcattttttctttatctgatttcttgcagaattcttttctgtatggtttattgttcagTGATTGTAGGAGAGGTTGCAAACTTCGTTGCATATGCATTTGCTCCAGCAGTCCTAGTTACTCCTCTTGGTGCATTAAGTATTATTGTGAGGTATTCCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC