Sequence
atgc intronic sequence ATGC exonic sequence...atgctttgtattttccttttatgttttatattattgatttttcttgtgtctgcatcatcaatgacaattttacgacatcgtcttgtcttttgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGTGCCAATTATCCTGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGTGGAAGCATGGATC
Basic information
species | Glycine max |
transcript | GLYMA03G32410.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G32410.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g11200.1 (Oryza sativa), 3'ss of exon 6
-atgctttgtattttccttttatgttttatattattgatttttcttgtgtctgcatca--tcaatgacaattttacgacatcgtcttgtcttttgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGTGCCAATTATCCTGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGTGGAAGCATGGATC
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aacttcttctgtttttttgtca-atattttattgttattccctttatttcctttattacttccgctcaagttttctgatgttacccaatatttgtt--ttcagGTTATCAAGCTGTATGAAAGATGTGTTATTGCATGTGCTAGTTATTCAGAGTTTTGGATCCGTTATGTGCTATGCATGGAAGCTAGAGGAAGCATAGAAC
upper sequence: GLYMA03G32410.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0005g04290.t01 (Vitis vinifera), 3'ss of exon 2
----atgctttgtattttccttttatgttttatattattgattt--ttcttgtgtc--tgcatcatcaatgacaattttacgacatcgtcttgtcttttgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGTGCCAATTATCCTGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGTGGAAGCATGGATC
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gtacttcttatgcatttgtcctttgtgttt-gtattaatcctttgattcatgtaacagtgaatcatgatgtaccatttaatc-catggtgttat-tcatatgaatcagGTTGTTAAATTATATGAAAGATGCCTAATTGCATGTGCAAATTATCCCGAGTACTGGATACGATATGTTTTATGCATGGAGGCCAGTGGAAGCATGGATC
upper sequence: GLYMA03G32410.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ09397 (Selaginella moellendorffii), 3'ss of exon 4
atgctttgtattttccttttatgttttatattattgatttttcttgtgtctgcatcatcaatgacaattttacgacatcgtcttgtcttttgtgatt-tagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGTGCCAATTATCCTGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGTGGAAGCATGGATC-----
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---------------------------------------------gtaatgctgtcttt--tccctacttgacg-ctgaaactaatgtattttaattgcagATAGTGAAGGCATACGAGAGATGTGTGATCGCCTGTGCAAATTATCCGGAGTATTGGATTCGCTATATTCATACAATGGAAGC-----AAAATCTCGATCTGAGA
upper sequence: GLYMA03G32410.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ34954 (Selaginella moellendorffii), 3'ss of exon 4
atgctttgtattttccttttatgttttatattattgatttttcttgtgtctgcatcatcaatgacaattttacgacatcgtcttgtcttttgtgatt-tagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGTGCCAATTATCCTGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGTGGAAGCATGGATC-----
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---------------------------------------------gtaatgcagtcttt--tccctacttgacg-ctgaaactaatgtattttaattgcagATAGTGAAGGCATACGAGAGATGTGTGATCGCCTGTGCAAATTATCCGGAGTATTGGATTCGCTATATTCATACAATGGAAGC-----AAAATCTCGATCTGAGAMapped 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|17400411|gb|BM177193.1|BM177193EST: ATTGGCATAACTATCTGGACTTTATAGAAAGGGAGGGTGACTTGAGCAAG ATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGTGCCAATTATCCTGAG
genomic: ATTGGCATAACTATCTGGACTTTATAGAAAGGGAGGGTGACTTGAGCAAGgtaacatatg ... tgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGTGCCAATTATCCTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtctgcatcatcaatgacaattttacgacatcgtcttgtcttttgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGTGCCAATTATCCTGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGTGGAAGCATGGATC
tcgtcttgtctttt CT-rich tract
acaatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgctttgtattttccttttatgttttatattattgatttttcttgtgtctgcatcatcaatgacaattttacgacatcgtcttgtcttttgtgatttagATTGTCAAGTTGTATGAGAGATGTGTCATTGCATGTGCCAATTATCCTGAGTATTGGATACGCTATGTTTTGTGTATGGAAGCCAGTGGAAGCATGGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
-tgctttg
- - - - - - - - - - - - - - - - - - - - -tcttgtg
- - - - - - - - - - - - - - - - - - - - - - - - -ctgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatgac