Sequence
atgc intronic sequence ATGC exonic sequenceAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGAGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttttattcctttaagtgctgaacatctgatcactatgtcttaaatttatggtttacggttttgttgatttttgctt...
Basic information
species | Glycine max |
transcript | GLYMA07G07850.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G07850.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os04g58750.2 (Oryza sativa), 5'ss of exon 4
-AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGAGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcatttttttt---attcctttaagtgctgaacatctgatcactatgtct-taaatttatggtttacggttttgttgatttttgctt-
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AAGGTTAGCAA-TTTGCTTGGCTGTTGCTGCGAAGGTGACGAGAGATTGCTTGTTGCAGAATACATGCCCAATGACACACTAGCGAAGCATCTTTTCCATTgtgag-----ttgccatgcatttcttgtcgcatgccttagaacttttatgttgctgtcatcacatcaattagtaactgggttctgttcatggttacatttccgca
upper sequence: GLYMA07G07850.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 4
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGAGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttttattcctttaagtgctgaacatctgatcactatgtcttaaatttatggtttacggttttgttgatttttgctt-----
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AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGCGATGAGAGATTGCTTGTTGCAGAATACATGCCCAATGATACGCTAGCGAAGCACCTTTTCCATTgt--gagttctttgaaaacatagtt---atgtttagcattacaaaacaatttgcattcataatctgttgcttgactacaaggaattaaggatgatgccatgacat
upper sequence: GLYMA07G07850.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G055561_T01 (Zea mays), 5'ss of exon 5
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGAGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttttattcctttaagtgctgaacatctgatcactatgtcttaaatttatggt--ttacggttttgttgatttttgctt---------------
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------------------------TGCTGCGAAGGTGATGAAAGGTTGCTTGTTGCAGAATACATGCCCAATGATACGCTCGCGAAACATCTTTTCCACTGTGAGTCCTTTGAAAACATTCTATgttagttatgtttagcattacaaaattgt---cggggaccataattaggggtaccctcaagacgcctaattctcagctggtaacccccatcag
upper sequence: GLYMA07G07850.2 (Glycine max), 5'ss of exon 4
lower sequence: AT1G01740.1 (Arabidopsis thaliana), 5'ss of exon 4
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGAGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttttattcctttaagtgctgaacatctgatcactatgtcttaaatttatggtttacggttttgttgatttttgctt
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AGAATGGCCAATTTACTCGGTTATTGCTGTGAAGGCGGCGAGAGGTTACTTGTGGCTGAGTTTATGCCTAATGAGACACTAGCCAAACACCTTTTCCACTgtaaaaag----aaaatgcctttgatcaattgtctttcgattt---tctttcaagattttctcctaagatt-tgcttaccacttttatcatctaccag--
upper sequence: GLYMA07G07850.2 (Glycine max), 5'ss of exon 4
lower sequence: AT4G00710.1 (Arabidopsis thaliana), 5'ss of exon 4
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGAGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttttattcctttaagtgctgaacatctgatcactatgtcttaaatttatggtttacggttttgttgatttttgctt----
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AGAATGGCCAATTTACTCGGATGTTGCTGCGAAGGTGACGAGAGGTTACTTGTAGCAGAGTTTATGCCTAATGAAACACTAGCCAAACACCTTTTTCACTgtgagaatcatttttcc----tatatatagcctttcatttaataatcttgccat-gctagtcttggaagttatggtgtctaagtgtactt-tttatgctactag
upper sequence: GLYMA07G07850.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv15s0046g02900.t01 (Vitis vinifera), 5'ss of exon 4
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGAGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttttattcctttaagtgctgaacatctgatcactatgtcttaaatttatggtttacggttttgttgatttttgctt------
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AGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATATGCCCAATGAAACACTTGCAAAACACCTTTTCCATTgtaagtttttggtacaggaataactgttgta-----aagctctcaatggttctttagcatgtgttagaag-atgttttttaacctttgcacttgttcctgatgtatMapped 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|16106128|gb|BI893868.1|BI893868EST: TGTGGCAGAATATATTTTTA-TGAAACACTTGCAAAGCACCTTTTTCATT GGGAAACACAACCCATGAAATGGGCAATGCGACTAAGAGTTGTTCTACATC
genomic: TGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctc ... tctaaatcagGGGAAACACAACCCATGAAATGGGCAATGCGACTAAGAGTTGTTCTACATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGAGAGGAGAGGTTGCTTGTGGCAGAATATATGCCCAATGAAACACTTGCAAAGCACCTTTTTCATTgtaagagctccttttatgcattttttttattcctttaagtgctgaacatctgatcactatgtcttaaatttatggtttacggttttgttgatttttgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG