Sequence
atgc intronic sequence ATGC exonic sequencegtaatatgcttctcaaccaaaggatttaagatacttaaagtatgattactttttctgtctctatacattgatacgtagtacttgtctgcagCTTAAATATAACGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGCCAGTGGAATATGATGAACAAG
Basic information
species | Glycine max |
transcript | GLYMA10G00530.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G43810.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaatatgcttctcaaccaaaggatttaagatacttaaagtatgattactttttctgtctctatacattgatacgtagtacttgtctgcagCTTAAATATAACGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGCCAGTGGAATATGATGAACAAG----------------------------
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gtaaaaaac--ctaaac---agatctctgaatgctcatactatgagaa----tactgttatgttaattcgtctctctttgcttg-ctacagCTTAAGTATCACGAGAACGGGAAAGAAAAAGATTGTCTCCCGCAAGTTGGTCAGTGGAATATGATGAACAAGAAAATGATCAACGGGATGACTGTGAGCA
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 9
gtaatatgcttctcaaccaaaggatttaagatacttaaagtatgattactttttctgtctctatacattgatacgtagtacttgtctgcagCTTAAATATAACGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGCCAGTGGAATATGATGAACAAG
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gtaatat--tcaccatcctaaa---tttatatatgtgaaagatgataggtattacacattgtgcctgatctgacttctattttatctgcagCTGAAATATCATGAAACTGGGAAGGAAAAGGATTGTTTGCCTCAAGTCGGTCAGTGGAATATGATGAACAAA
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ15357 (Selaginella moellendorffii), 3'ss of exon 10
gtaatatgcttctcaaccaaaggatttaagatacttaaagtatgattactttttctgtctctatacattgatacgtagtacttgtctgcagCTTAAATATAACGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGCCAGTGGAATATGATGAACAAG
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-------------------------------------------gtatgtcttccgaagatcgttaattcaagctctaacgttttctgacagTTGAAGTATCATGATACTGGACGGGAGAAAGACTGCCTTCCTCAAGTTGGGCAGTGGAATATGATGAACAAG
upper sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ24991 (Selaginella moellendorffii), 3'ss of exon 10
gtaatatgcttctcaaccaaaggatttaagatacttaaagtatgattactttttctgtctctatacattgatacgtagtacttgtctg-cagCTTAAATATAACGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGCCAGTGGAATATGATGAACAAG
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---------------------------------------gtatg-----tcttccgaagaccgttaattcaagctcaaacgttttctgacagTTGAAGTATCATGATACTGGACGGGAGAAAGACTGCCTTCCTCAAGTTGGGCAGTGGAATATGATGAACAAGMapped 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|18041185|gb|BM309479.1|BM309479EST: ATAGTGTAAAACTAGCTTCTGTAGAAGCACGAATTCTCCCTGCCCCATGG CTTAAATATAACGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGC
genomic: ATAGTGTAAAACTAGCTTCTGTAGAAGCACGAATTCTCCCTGCCCCATGGgtaatatgct ... ttgtctgcagCTTAAATATAACGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagtatgattactttttctgtctctatacattgatacgtagtacttgtctgcagCTTAAATATAACGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGCCAGTGGAATATGATGAACAAG
cattgat putative branch site (score: 4)
cttgtct putative PPT
attacttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatgcttctcaaccaaaggatttaagatacttaaagtatgattactttttctgtctctatacattgatacgtagtacttgtctgcagCTTAAATATAACGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGCCAGTGGAATATGATGAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA