Sequence
atgc intronic sequence ATGC exonic sequence...gaggttttgagaaagaatccaaatatgaagtatggccaacatagttaggaaaaactgccatgcaaactgaaatgacatctcagatacttattcgtttcagACCGTAGAGCTGAAAGTAAGGATGTGCTGCACTGGCTGCGAGAGAGTTGTTAAAAACGCCATTTACAAACTCAAAG
Basic information
species | Glycine max |
transcript | GLYMA20G36080.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G36080.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0025g03010.t01 (Vitis vinifera), 3'ss of exon 1
gaggttttgagaaagaatccaaatatgaagtatggccaacatagttaggaaaaactgccatgcaaactgaaatgacatctcagatacttattcgttt--cagACCGTAGAGCTGAAAGTAAGGATGTGCTGCACTGGCTGCGAGAGAGTTGTTAAAAACGCCATTTACAAACTCAAAG
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--gaacagaagggaacaaaggaatatatataagaaaagagggaaaccgtgtatatttttgtggagacagcatctatgactgtgcaccgtgtttgctttacagACTGTGGAGCTCAAAGTAAGGATGTGCTGCACCGGCTGCGAGAGAGTCGTTAAAAATGCCATTTTCAAGCTTAGAGMapped 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|10254228|gb|BE821994.1|BE821994EST: AAGATGCCAAAGAAGGGTCGACCACTTTCCTTGCAG ACCGTAGAGCTGAAAGTAAGGATGTGCTGCACTGGCTGCGAGAGAGTTGTT
genomic: AAGATGCCAAAGAAGGGTCGACCACTTTCCTTGCAGgtttgctttc ... ttcgtttcagACCGTAGAGCTGAAAGTAAGGATGTGCTGCACTGGCTGCGAGAGAGTTGTT
EST:
gi|151402033|gb|EV271846.1|EV271846EST: TTCCTAGGAACTTCAAGATGCCAAAGAAGGGTCGACCACTTTCCTTGCAG ACCGTAGAGCTGAAAGTAAGGATGTGCTGCACTGGCTGCGAGAGAGTTGTT
genomic: TTCCTAGGAACTTCAAGATGCCAAAGAAGGGTCGACCACTTTCCTTGCAGgtttgctttc ... ttcgtttcagACCGTAGAGCTGAAAGTAAGGATGTGCTGCACTGGCTGCGAGAGAGTTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taggaaaaactgccatgcaaactgaaatgacatctcagatacttattcgtttcagACCGTAGAGCTGAAAGTAAGGATGTGCTGCACTGGCTGCGAGAGAGTTGTTAAAAACGCCATTTACAAACTCAAAG
ttcgtttc CT-rich tract
atacttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaggttttgagaaagaatccaaatatgaagtatggccaacatagttaggaaaaactgccatgcaaactgaaatgacatctcagatacttattcgtttcagACCGTAGAGCTGAAAGTAAGGATGTGCTGCACTGGCTGCGAGAGAGTTGTTAAAAACGCCATTTACAAACTCAAAG
- ggttttg
- - - - - - - - atccaaa
- - - - - - - - - - - -tatgaag
- - - - - - - - - - - - - - - - - -ccaacat
- - - - - - - - - - - - - - - - - - - - - - - - gaaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgacatc