Sequence
atgc intronic sequence ATGC exonic sequence...ctgtgtgaatattgtctatatttgaatatgttgaaccttataatatgtttcatgtgcatgtttcacttgttcttacatgttgattgctcatgaaatacagATAAAACAGACTTTGGAGAAAAGGAGTGGTACTTCTTTAGCCCACGAGAGAGGAAGTATCCAAATGGGGTGAGGCCTAATAGAGCAACCGTGTCTGGGTA
Basic information
species | Glycine max |
transcript | GLYMA01G06150.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G06150.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G69490.1 (Arabidopsis thaliana), 3'ss of exon 1
ctgtgtgaatattgtctatatttgaat-atgttgaaccttataatatgtttcatgtgcatgtttcacttgttcttacatgttgattgctcatgaaatacagATAAAACAGACTTTGGAGAAAAGGAGTGGTACTTCTTTAGCCCACGAGAGAGGAAGTATCCAAATGGGGTGAGGCCTAATAGAGCAACCGTGTCTGGGTA
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--gt-tagacccggtttatctctcaatgataacctattcttctagatgtt-catgtttagagctactttccttatttgctttgttcgttttgtatttacagAGAAAACAGAGTTTGGAGAAAATGAGTGGTATTTCTTCAGCCCTAGAGAAAGAAAATATCCAAACGGAGTCAGACCAAACCGGGCAGCTGTTTCCGGTTA
upper sequence: GLYMA01G06150.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0026g02710.t01 (Vitis vinifera), 3'ss of exon 1
ctgtgtgaatattgtctatatttgaatatgttgaaccttataatatgtttcatgtgcatgtttcacttgtt----cttacatgttgattgctcatgaaatacagATAAAACAGACTTTGGAGAAAAGGAGTGGTACTTCTTTAGCCCACGAGAGAGGAAGTATCCAAATGGGGTGAGGCCTAATAGAGCAACCGTGTCTGGGTA
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----gtgagtttcattt-cattggtaggagtacatatctcaactatgct-catgctcatgtaactcgtgtttaacctttaatttttactatatgggctgtgcagAGAAGGCGGAATTTGGAGAAAATGAGTGGTATTTCTTTAGCCCGCGTGACCGTAAGTATCCCAATGGGGCTAGACCCAACCGAGCTACAGTGTCCGGCTAMapped 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|254343870|gb|GR857626.1|GR857626EST: AATCATTCCAGAAGTGGATATCTATAAGTTTGATCCATGGGAATTACCTG ATAAAACAGACTTTGGAGAAAAGGAGTGGTACTTCTTTAGCCCACGAGAGA
genomic: AATCATTCCAGAAGTGGATATCTATAAGTTTGATCCATGGGAATTACCTGgtaatcaaac ... tgaaatacagATAAAACAGACTTTGGAGAAAAGGAGTGGTACTTCTTTAGCCCACGAGAGA
EST:
gi|23732430|gb|BU764373.1|BU764373EST: AATCATTCCAGAAGTGGATATCTATAAGTTTGATCCATGGGAATTACCTG ATAAAACAGACTTTGGAGAAAAGGAGTGGTACTTCTTTAGCCCACGAGAGA
genomic: AATCATTCCAGAAGTGGATATCTATAAGTTTGATCCATGGGAATTACCTGgtaatcaaac ... tgaaatacagATAAAACAGACTTTGGAGAAAAGGAGTGGTACTTCTTTAGCCCACGAGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttcatgtgcatgtttcacttgttcttacatgttgattgctcatgaaatacagATAAAACAGACTTTGGAGAAAAGGAGTGGTACTTCTTTAGCCCACGAGAGAGGAAGTATCCAAATGGGGTGAGGCCTAATAGAGCAACCGTGTCTGGGTA
atgaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtgtgaatattgtctatatttgaatatgttgaaccttataatatgtttcatgtgcatgtttcacttgttcttacatgttgattgctcatgaaatacagATAAAACAGACTTTGGAGAAAAGGAGTGGTACTTCTTTAGCCCACGAGAGAGGAAGTATCCAAATGGGGTGAGGCCTAATAGAGCAACCGTGTCTGGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA