Sequence
atgc intronic sequence ATGC exonic sequence...ttatgattgcaatttaatttgttaattgttcaagtgattttaaaattcgtggataatatatgcatatgcatgtcattaacagttgacttgcctatctcagGTGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAGATTTAGAGATGAAGAGAACCCTTCTTGGCCAGAAGCACGAGATTTTGTTT
Basic information
species | Glycine max |
transcript | GLYMA01G42790.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G42790.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 10
----ttatgattgcaa--tttaatttgttaattgttcaagtgattttaaaattcgtggataatatatgcatatgcatgtcattaacagttgacttgcctatctcagGTGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAGATTTAGAGA---TGAAGAGAACCCTTCTTGGCCAGAAGCACGAGATTTTGTTT
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aaatgtttaattaaaacattaagcttgtgaac----catgctttttacaaattcgcccataaagtttgaatatttacaacataggtgctctgaatg--tgtaccagGTGAACAGTGAGCACCCACTGGCTAAGGCCATTGTGGAGTATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACTTGGCCAGAAGCAAAGGATTTCG---
upper sequence: GLYMA01G42790.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 4
-ttatgattgcaatttaatttgttaattgttcaagtgattttaaaattcgtggataatatatgcatatgcatgtcattaacagttgacttgcctatctcagGTGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAGATTTAGAGATGA---AGAGAACCCTTCTTGGCCAGAAGCACGAGATTTTGTTT
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gccaaatatcatttttaagctgtccactcaagcagtaactttgtcaaccatg-atgttgagaaggaatgtttaaaatgtagatgttctggatgtgtatcagGTGAACAGTGAGCACCCATTAGCCAAGGCCATTGTTGAGTATGCCAAGAAATTCAGAGAAGACGGAGAGAGCCCCACCTGGCCTGAAGCAAGAGATTTTG---
upper sequence: GLYMA01G42790.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g03640.t01 (Vitis vinifera), 3'ss of exon 3
ttatgattgcaatttaatttgttaattgttcaa--gtgattttaaaattcgtggataatatatgcatatgcatgtcattaacagttgacttgcctatctcagGTGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAGATTTAGAGA---TGAAGAGAACCCTTCTTGGCCAGAAGCACGAGATTTTGTTT
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tcaaacagtccattcaagaagtaagcttttgaaccatgcttttgcaaatcgcccacgaagaatgaatacttagaatgtaggtactctggatg--tgtaccagGTGAACAGTGAGCACCCACTAGCCAAGGCCATTGTAGAATATGCTAAGAAATTCAGAGAAGATGAAGAGAATCCCACCTGGCCAGAAGCCAAAGATTTCG---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|23729122|gb|BU762645.1|BU762645EST: CAAAAATGGTGCTCCAGGAGTTCTATGAACTTGTGGCTGCAGCTGAGG-- -TGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAG
genomic: CAAAAATGGTGCTCCAGGAGTTCTATGAACTTGTGGCTGCTGGTGAGGAAgtcgtctctc ... cctatctcagGTGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcgtggataatatatgcatatgcatgtcattaacagttgacttgcctatctcagGTGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAGATTTAGAGATGAAGAGAACCCTTCTTGGCCAGAAGCACGAGATTTTGTTT
cctatctc CT-rich tract
ataatatatgcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatgattgcaatttaatttgttaattgttcaagtgattttaaaattcgtggataatatatgcatatgcatgtcattaacagttgacttgcctatctcagGTGAATAGTGAGCATCCACTGGCCAAGGCCGTTGTTGAGTATGCTAAAAGATTTAGAGATGAAGAGAACCCTTCTTGGCCAGAAGCACGAGATTTTGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- -tgattgc
- - - - - - - - - - - - - - - caagtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacttg