Sequence
atgc intronic sequence ATGC exonic sequence...tgattgctccatttatggttttggcttctacttttctctatgacagtgttctgacagtaaatagtaatacattgttggttataacttctgcactctgcagGTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCACTTACATGATGCCCACCTGAACTTGAGCACAGACATGGCTTTGCATATA
Basic information
species | Glycine max |
transcript | GLYMA16G28290.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G28290.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g05260.1 (Oryza sativa), 3'ss of exon 9
---tgattgctc-catttatggttttggcttctacttttctcta-tgacagtgttctgacagtaaatagtaatacattgttggttataacttctgcactctgcagGTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCACTTACATGATGCCCACCTGAACTTGAGCACAGACATGGCTTTGCATATA
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ttctaatttgtcacacgcatcctgtccatttccctgccttactggtgaccaagctttcatactccaggattgttaat-----atcatggtatttctcacctgcagATACAGTCGCCATGATAAACGGTCTAAACTGCCTGGGTGGATACTGTCACACTTACATGATGCGCACCTAAATCTGAGCACTGATATGGCTTTGCATATA
upper sequence: GLYMA16G28290.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 10
tgattgctccatttatggttttggcttctacttttctctatgacagtgtt-ctgacagtaaatagtaatacattgttggttataactt-ctgcactc-tgcagGTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCACTTACATGATGCCCACCTGAACTTGAGCACAGACATGGCTTTGCATATA
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--agccctgagacgagatatttcccaaatgtgttatttggagataatttcattcgtcttttttactcata-atacttatgtatggtcaactgaacttgtgcagGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATTMapped 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|208096357|gb|GD892106.1|GD892106EST: GTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAG GTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCA
genomic: GTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgttagtatcc ... cactctgcagGTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgttctgacagtaaatagtaatacattgttggttataacttctgcactctgcagGTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCACTTACATGATGCCCACCTGAACTTGAGCACAGACATGGCTTTGCATATA
ttataac putative branch site (score: 2)
cttctgc CT-rich tract
taaatagtaatacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattgctccatttatggttttggcttctacttttctctatgacagtgttctgacagtaaatagtaatacattgttggttataacttctgcactctgcagGTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCACTTACATGATGCCCACCTGAACTTGAGCACAGACATGGCTTTGCATATA
- - tgctcca
- - - - - - - - - - -tggcttc
- - - - - - - - - - - - - - - - - - - - - - - - ttctgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttggtt