Sequence
atgc intronic sequence ATGC exonic sequence...taggtcctactattgagaacattattagaacttcatttctttttttccttttccccttggttgggccatagtcatcctgttttgattggatttctgacagGTTTTAAATCACATGGAAGGTGCACGAAATCCATTGCCGTCATTGCATAACTTTTATGTTTTGATTGAGACAACAGGCAGTGATGAATCTTCTGACAA
Basic information
species | Glycine max |
transcript | GLYMA01G37490.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G37490.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv04s0023g02630.t01 (Vitis vinifera), 3'ss of exon 9
taggtcctactattgagaacattattagaacttcatttctttttttccttttccccttggttgggccatagtcatcctgttttgattggatttctg--acagGTTTTAAATCACATGGAAGGTGCACGAAATCCATTGCCGTCAT---TGCATAACTTTTATGTTTTGATTGAGACAACAGGCAGTGATGAATCTTCTGACAA
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-aagtc-tgtcatgcagaatgactttgctttgtctaaggaaaagtgaatggcatttaattttggattatttgtatcattatcaagagatatttatgtcacagGTTCTGAATCATTTAGAAGGAGCCCGGAACCCATTACCTCCCTCGATGCATAACTTTTATGTTCTGATTGAGACAACAGGAAGTGATGAATCTTATGATA-
upper sequence: GLYMA01G37490.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S6_281V6.1 (Physcomitrella patens), 3'ss of exon 10
-----taggtcctactattgagaacattattagaacttcatttctttttttccttttccccttggttgggccatagtcatcctgttttgattggatttctgacagGTTTTAAATCACATGGAAGGTGCACGAAATCCATTGCCGTCATT---GCATAACTTTTATGTTTTGATTGAGACAACAGGCAGTGATGAATCTTCTGACAA
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atttgtaatcactgattcatagaggcggattggaggagttttagtttgcaggttgtctgatattgatttttctcaagtatgatacattg-tgggat----ggcagGCTCTGACCCATTTGCCTGGAACAAGAGATCCTTTGCCACAATCTGGGAAAAACTTTTATCTTTTGATAGAGACAACAGGCAGTAATGAAACCCATGACA-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|23729268|gb|BU762717.1|BU762717EST: GGGAGATTTTATCTGCATTTGAATTTCTGGATGTCCAGTCTATGAATTTG GTTTTAAATCACATGGAAGGTGCACGAAATCCATTGCCGTCATTGCATAAC
genomic: GGGAGATTTTATCTGCATTTGAATTTCTGGATGTCCAGTCTATGAATTTGgtaacctcaa ... tttctgacagGTTTTAAATCACATGGAAGGTGCACGAAATCCATTGCCGTCATTGCATAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccttttccccttggttgggccatagtcatcctgttttgattggatttctgacagGTTTTAAATCACATGGAAGGTGCACGAAATCCATTGCCGTCATTGCATAACTTTTATGTTTTGATTGAGACAACAGGCAGTGATGAATCTTCTGACAA
ttttgat putative branch site (score: 4)
tttct putative PPT
ttttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggtcctactattgagaacattattagaacttcatttctttttttccttttccccttggttgggccatagtcatcctgttttgattggatttctgacagGTTTTAAATCACATGGAAGGTGCACGAAATCCATTGCCGTCATTGCATAACTTTTATGTTTTGATTGAGACAACAGGCAGTGATGAATCTTCTGACAA
- - - - - - - - - - - - - - - cttcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgttt