Sequence
atgc intronic sequence ATGC exonic sequenceCATTGCTGATGAAGTGCAATGTGGGTTTGCGCGCACAGGAAGCCATTTTTGGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACTATGGCAAAGgtctagaccctcatctcttctttctaagtttttatttttaactaattgcaggagacagtgacaccttaataatgtacttcaagtgcaacatcagtctgtt...
Basic information
species | Glycine max |
transcript | GLYMA11G36000.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G36000.3 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G124353_T01 (Zea mays), 5'ss of exon 5
CATTGCTGATGAAGTGCAATGTGGGTTTGCGCGCACAGGAAGCCATTTTTGGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACTATGGCAAAGgtctagaccctcatctcttctttctaagtttttatttttaactaattgcaggagacagtgacacct-----------taataatgtacttcaagtgcaacat--cagtctgtt--------------
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TATTGCTGATGAAGTCCAGAGTGGTTTTGGCCGTACTGGCAGTCATTACTGGGGATTCCAGACACAAGGTGTCATTCCTGACATAGTCACCATGGCAAAGgtctatctccta--ctctaaaatgcaagcatgtact---aatcaaccctggggga-aatgtcttctgtttttttttgtggcaacatctttccatactgatgtgacaatttgttccccctggtttcag
upper sequence: GLYMA11G36000.3 (Glycine max), 5'ss of exon 5
lower sequence: AT4G39660.1 (Arabidopsis thaliana), 5'ss of exon 5
CATTGCTGATGAAGTGCAATGTGGGTTTGCGCGCACAGGAAGCCATTTTTGGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACTATGGCAAAGgtct-----agaccctcatctcttctttctaagtttttatttttaactaattgcagg-------agacagtgac-accttaa---taatgtacttcaagtgcaacat-cagtctgtt---------------------------
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CATTGCTGATGAAGTCCAAACTGGATTTGGGCGAACAGGAAGCCACTATTGGGGTTTCCAGACTCAAGATGTGGTTCCTGACATAGTCACAATGGCAAAGgtttgtcaaaagaagttgttaccacttgctctgttcttacttcttaccatatgctatgttctccattctttgactacgtttactgttatatacttaaagaaacatgtgtagttcactaataattgacaccggttatattcacag
upper sequence: GLYMA11G36000.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv07s0031g01330.t01 (Vitis vinifera), 5'ss of exon 5
CATTGCTGATGAAGTGCAATGTGGGTTTGCGCGCACAGGAAGCCATTTTTGGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACTATGGCAAAGgtctagaccctcatctcttctttctaagtttttat--ttttaactaattgcaggagacagtgacaccttaataatgtacttcaagtgcaacat--cagtctgtt--------------------------------------------------------------------------------------------------
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TATTGCTGACGAAGTGCAAACTGGCTTTGGTCGCACAGGAAGCCATTACTGGGGTTTTGAGACACAGGGCGTCATACCTGATATAGTTACTATGGCAAAGgttt-----ctctagtcatccttatagtcttttatggtttttacccatcctgggtggcattgatagtaaaattctatattgcatttctttcttggtaacttgttttctagatgcattacaactttcatttcagtttattatttcatgtcttgtaaaatattgctcaaccattccactgaatttcagaaataacatttatcagMapped 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|21594810|gb|BQ610275.1|BQ610275EST: GGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACTATGGCAAAG GGTATTGGCAATGGTTTGCCATTAGCAGCTGTAGTTACAACTCCAGAAATA
genomic: GGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACTATGGCAAAGgtctagaccc ... tatgcatcagGGTATTGGCAATGGTTTGCCATTAGCAGCTGTAGTTACAACTCCAGAAATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATTGCTGATGAAGTGCAATGTGGGTTTGCGCGCACAGGAAGCCATTTTTGGGGATTTGAGACACAGGGTGTCATTCCTGATATAGTTACTATGGCAAAGgtctagaccctcatctcttctttctaagtttttatttttaactaattgcaggagacagtgacaccttaataatgtacttcaagtgcaacatcagtctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG