Sequence
atgc intronic sequence ATGC exonic sequence...gctatctagttgtttattttaaagtataataatgattgtcttccatccctctggttatatatatatgtaactttgacaatgattctggttctgaatgcagATCAAGAGGGAAATCAAAATATTACAGAATCTTTGTGGAGGGCCTAATATTGTACAGTTGCTTGACATTGTTAGAGACCAACAGTCGAAGACCCCAAGTC
Basic information
species | Glycine max |
transcript | GLYMA05G22320.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G23070.1 (Arabidopsis thaliana), 3'ss of exon 2
-------------gctatctagttgtttat-tttaaagtataataatgat----tgtcttccatccctctggttatatatatatgtaactttgaca-atgattctggttctgaatgcagATCAAGAGGGAAATCAAAATATTACAGAATCTTTGTGGAGGGCCTAATATTGTACAGTTGCTTGACATTGTTAGAGACCAACAGTCGAAGACCCCAAGTC
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gtgagtagatacagccgcttgcttgtttttatctcaattgtgctcagaatgaagtgtgtttctggcccttcacttggtttgaattattctctaacatattttgcttctccttgacgcagATTAAGAGAGAGATTAAGATTCTGCAGAACCTCTGCGGTGGGCCTAATATTGTAAAATTGCTCGACATTGTTAGAGATCAGCAGTCTAAGACGCCCAGCT
upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0129g00270.t01 (Vitis vinifera), 3'ss of exon 2
---gctatctagttgtttattttaaagtataataatgattgtcttccatccctctggttatatatatatgtaactttgacaatgattctggttctgaatgcagATCAAGAGGGAAATCAAAATATTACAGAATCTTTGTGGAGGGCCTAATATTGTACAGTTGCTTGACATTGTTAGAGACCAACAGTCGAAGACCCCAAGTC
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atacagatcaagaaggttttctctttttgctgcatagcatatttcaca---caataaatttgtgaagatttacttccattcatttcttttctgttaaatacagATCAAGAGGGAGATTAAAATACTGCAGAACCTTTGTGGTGGGCCAAATATTGTGAAGTTGCTTGATATTGTTAGAGATCAGCAATCAAAGACCCCAAGTC
upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S230_93V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------------------------------------------------------------------gcta---tctagttgtttattttaaagtataataatgattgtcttccatccctctggttatatatatatgtaactttga-caatgattctggttctgaatgc--agATCAAGAGGGAAATCAAAATATTACAGAATCTTTGTGGAGGGCCTAATATTGTACAGTTGCTTGACATTGTTAGAGACCAACAGTCGAAGACCCCAAGTC
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gtacagattatggctatagttgggactgacaagaaattggttagtcattttggcaaaagctacagtcagtgttttgctaaagtctccatatagtctgcaagttgtggcgattatgcagttaatttttgttgagagtattcttgttctgatctaatctctggttctggctgcatcttcttagATTAAAAGAGAAATCAAGATATTACAGAATCTGTGTGGAGGCCCCAATATTGTGAAGCTTTTGGACATTGTCAGAGATCAGCAATCCAAAACCCCCAGTCMapped 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|37995826|gb|CF807415.1|CF807415EST: AAATGTGTCATTAAGATCCTGAAACCCGTGAAGAAGAAGAAG
genomic: AAATGTGTCATTAAGATCCTGAAACCCGTGAAGAAGAAGAAGgtgagttatg ... ctgaatgc
EST:
gi|8286038|gb|BE023526.1|BE023526EST: CGGACGGTGAGAAATGTGTCATTAAGATCCTGAAACCCGTGAAGAAGAAGAAG
genomic: CGGACGGTGAGAAATGTGTCATTAAGATCCTGAAACCCGTGAAGAAGAAGAAGgtgagttatg ... ctgaatgc
EST:
gi|9819518|gb|BE555031.1|BE555031EST: CGGACGGTGAGAAATGTGTCATTAAGATCCTGAAACCCGTGAAGAAGAAGAAG
genomic: CGGACGGTGAGAAATGTGTCATTAAGATCCTGAAACCCGTGAAGAAGAAGAAGgtgagttatg ... ctgaatgc
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccctctggttatatatatatgtaactttgacaatgattctggttctgaatgcagATCAAGAGGGAAATCAAAATATTACAGAATCTTTGTGGAGGGCCTAATATTGTACAGTTGCTTGACATTGTTAGAGACCAACAGTCGAAGACCCCAAGTC
ttatatatatatgtaa 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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctatctagttgtttattttaaagtataataatgattgtcttccatccctctggttatatatatatgtaactttgacaatgattctggttctgaatgcagATCAAGAGGGAAATCAAAATATTACAGAATCTTTGTGGAGGGCCTAATATTGTACAGTTGCTTGACATTGTTAGAGACCAACAGTCGAAGACCCCAAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gattctg