Sequence
atgc intronic sequence ATGC exonic sequence...gttccaatttgagatacttatctaatgattttattatactaattataatggtggcatactcataatatctggggaagcttataaaaaattgcttgtgtagGAAATTCGTCCATGGACGCACATGATGGAGGTTCCGCAACTTCATGGATTTGGACCAGCTGCCAATCGTTTATTGGAGGCCTATAAAATGCTTTTGAAG
Basic information
species | Glycine max |
transcript | GLYMA03G07390.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G07390.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g64920.1 (Oryza sativa), 3'ss of exon 7
----------------------------------------------------gttccaatttgagatacttatctaatgattttat-tatactaattataatggtggc-atactcataatatctggggaa-gcttataaaa------aattgcttg----tgtagGAAATTCGTCCATGGACGCACATGATGGAGGTTCCGCAACTTCATGGATTTGGACCAGCTGCCAATCGTTTATTGGAGGCCTATAAAATGCTTTTGAAG
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gtgaatatcttatgcaatggtttcttttttcttcccaatttcccatacttctgctgtacgttcagataaatatttt-tgacatgatatctttttctgctaacggttgccatctttatgtgttttgagttttacttgttagatgatagaattgcttttcattgtagGAAATTCATCCTTGGACACATATGATGGAGGTCCCTCAATTGCATGGTTTTGGTCCAGCTGCTAATCGCTTGTTGGAGGCATATAACACACTTTTGAAG
upper sequence: GLYMA03G07390.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G17620.1 (Arabidopsis thaliana), 3'ss of exon 7
-gttccaatttgagatacttatctaatgattttattatactaattataa--tggtggcatactcataatatctggggaagcttataaaaaattgcttgtgtagGAAATTCGTCCATGGACGCACATGATGGAGGTTCCGCAACTTCATGGATTTGGACCAGCTGCCAATCGTTTATTGGAGGCCTATAAAATGCTTTTGAAG
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cgcaaaaaatgcctctgaatatcttatgatctgactatcttttccagaaactgaaaaataagccgttgtatctttatcactatgtttggactttttt---cagGAAATTCGTCCATGGACGCATATGATGGAAGTGCCTCAGCTTCATGGTTTTGGTCCTGCTGCAAACCGTTTACTAGAAGCATATAATATGCTTTTAAAG
upper sequence: GLYMA03G07390.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0024g01470.t01 (Vitis vinifera), 3'ss of exon 7
gttccaatttgagatactt------atctaatgattttattatactaattataatggtggcatact--cataatatctggggaagcttataaaaaattgcttgtgtagGAAATTCGTCCATGGACGCACATGATGGAGGTTCCGCAACTTCATGGATTTGGACCAGCTGCCAATCGTTTATTGGAGGCCTATAAAATGCTTTTGAAG
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--tccaagctcacatccatcttgacaccaaataatctttccctgatactt-tactgtgaacagtctgtcttcgtaattacagcattttt-----ggtggtttttgtagGAAATTCGCCCTTGGACTCACATGATGGAGGTACCACAGCTTCATGGGTTTGGACCAGCTGCCAATCGCTTGTTGGAGGCGTACAAGATGCTTTTGAAG
upper sequence: GLYMA03G07390.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S216_69V6.2 (Physcomitrella patens), 3'ss of exon 7
---------------------------------------------gttccaat---ttgagatacttat-----ctaatgattttattatactaatta--taatggtggcatactcataatatctggggaagcttataaaaaattgcttgtgtagGAAATTCGTCCATGGACGCACATGATGGAGGTTCCGCAACTTCATGGATTTGGACCAGCTGCCAATCGTTTATTGGAGGCCTATAAAATGCTTTTGAAG
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gtacagtggaagcgtgatgcagttctccaataaatcttgagatttggtccattgtattagcgcagctgtaagcacggagggttcatgcacggccattcccttacagcacttggctcctcattgtggttgttgtgattgtatgatgtattgagcagGAAATTCGGCCATGGACGCATATGATGGACGTTCCCCAGCTTCATGGACTTGGACCTGCTGCAAATCGATTGCTGGATTCTTATAGCCAATTGCTTAAGMapped 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|151395430|gb|EV265307.1|EV265307EST: TGGAATCTTTTCTAGAAACAGCTAGAACATTCAATTTGATTTACACCAAG GAAATTCGTCCATGGACGCACATGATGGAGGTTCCGCAACTTCATGGATTT
genomic: TGGAATCTTTTCTAGAAACAGCTAGAACATTCAATTTGATTTACACCAAGgtttggccat ... gcttgtgtagGAAATTCGTCCATGGACGCACATGATGGAGGTTCCGCAACTTCATGGATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatggtggcatactcataatatctggggaagcttataaaaaattgcttgtgtagGAAATTCGTCCATGGACGCACATGATGGAGGTTCCGCAACTTCATGGATTTGGACCAGCTGCCAATCGTTTATTGGAGGCCTATAAAATGCTTTTGAAG
aagcttataaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttccaatttgagatacttatctaatgattttattatactaattataatggtggcatactcataatatctggggaagcttataaaaaattgcttgtgtagGAAATTCGTCCATGGACGCACATGATGGAGGTTCCGCAACTTCATGGATTTGGACCAGCTGCCAATCGTTTATTGGAGGCCTATAAAATGCTTTTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - aatggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - -gcatact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggggaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaat