Sequence
atgc intronic sequence ATGC exonic sequence...gataattgactgcagattatcaataactatggtcctttgtgtttgtgatggctgtgcattctataacaaaaaattaaatgttggtcaatgatttttgcagCTACCAGGAAGCAATTGAGGACATTACCAAAAGAATGGGTGCTGGAATGGCCAAATTTATTTGCAAGGAG
Basic information
species | Glycine max |
transcript | GLYMA12G04220.3 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G04220.3 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g10130.1 (Oryza sativa), 3'ss of exon 4
-gataattgactgcagattatcaataactatggtcctttgtgtttgtgatggctgtgcattctataacaaaaaattaaatgttggtcaatgatttttgcagCTACCAGGAAGCAATTGAGGACATTACCAAAAGAATGGGTGCTGGAATGGCCAAATTTATTTGCAAGGAG
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ccctatgacattgattagtattttaattcagaattatcta-gtctatgtaagtggtcccattcaagtagaagaagcaatacatgtttactctgttatccagATACCAAGAGGCAATTGAAGAAATTACCAGGAGAATGGGTGCAGGAATGGCAAAGTTTATATGCAAGGAG
upper sequence: GLYMA12G04220.3 (Glycine max), 3'ss of exon 4
lower sequence: AT4G34650.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------gataattgactgcagattatcaataactatggtcctttgt-gtttg---tgatggctgtgcattctataacaaaaaattaaatgttggtcaatgatttttgca-----gCTACCAGGAAGCAATTGAGGACATTACCAAAAGAATGGGTGCTGGAATGGCCAAATTTATTTGCAAGGAG
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gttaatttgctatatacaaattctgttctgttttttataaatgttcttgctcatttattgattgatctactgaatttggtgatactaattttatgttttgttttactaacttatatatacaaaaaagGTATCAAGAGGCTATTGAAGATATAACTAAAAGAATGGGTGCAGGAATGGCCAAGTTCATTTGCAAGGAG
upper sequence: GLYMA12G04220.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv03s0038g00450.t01 (Vitis vinifera), 3'ss of exon 4
-gataattgactgcagattatcaataactatggtcctttgtgtttgtgatggctgtgcattctataacaaaaaattaaatgttggtcaatgatttttgcagCTACCAGGAAGCAATTGAGGACATTACCAAAAGAATGGGTGCTGGAATGGCCAAATTTATTTGCAAGGAG
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ttttgagttcttgaatat-atacacatcttctatctgataaaaaaaaaatgtatacacatcttctacaaaccacttatgttatccaaaaaatttgttgcagTTATCAGGAGGCAATTGAAGACATCACCAAACGAATGGGGGCAGGAATGGCAAAATTTATTTGCAAAGAGMapped 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|151410377|gb|EV280192.1|EV280192EST: ATGGACCAGTTTCATCATGTTTCAACTGCTTTTCTGGAACTTGGAAAGAA CTACCAGGAAGCAATTGAGGACATTACCAAAAGAATGGGTGCTGGAATGGC
genomic: ATGGACCAGTTTCATCATGTTTCAACTGCTTTTCTGGAACTTGGAAAGAAgtcagttttt ... atttttgcagCTACCAGGAAGCAATTGAGGACATTACCAAAAGAATGGGTGCTGGAATGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatggctgtgcattctataacaaaaaattaaatgttggtcaatgatttttgcagCTACCAGGAAGCAATTGAGGACATTACCAAAAGAATGGGTGCTGGAATGGCCAAATTTATTTGCAAGGAG
ctataac putative branch site (score: 3)
tttttgc putative PPT
attctataacaaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gataattgactgcagattatcaataactatggtcctttgtgtttgtgatggctgtgcattctataacaaaaaattaaatgttggtcaatgatttttgcagCTACCAGGAAGCAATTGAGGACATTACCAAAAGAATGGGTGCTGGAATGGCCAAATTTATTTGCAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG