Sequence
atgc intronic sequence ATGC exonic sequence...gttagtttcttttgaattttttaaaaaaaaacatatgaaaatcatcattttttgcttatcttaaagttatacttgcattgatcctttaactgtttaacagGTTTGTGAGGCCCTCAAAAATGAGTGAACGAAGAATAAATGAATATGTTGAAGGAAAATATGGAAAATTTGGAGTTCACAG
Basic information
species | Glycine max |
transcript | GLYMA06G35090.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G35090.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os06g24594.6 (Oryza sativa), 3'ss of exon 2
gttagtttcttttgaattttttaaaaaaaaacata-tgaaaatcatcattttttgcttatcttaaagttatacttgcattgatcctttaactgtttaacagGTTTGTGAGGCCCTCAAAAATGAGTGAACGAAGAATAAATGAATATGTTGAAGGAAAATATGGAAAATTTGGAGTTCACAG-------------------
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catattgttttattcgtttgtgatgttaatcctttctgtattttcttgccttttcagtaatatcagttactatctctatcccctcgtgtgttgcttg-tagGTTTGTACACCCTACTGCGATGAGTGAGCAAAGAATAAGAGAATATATTGAAGGGAAATATGGGAAATTTGGAGTTGACCGGTATTTGTAGCACTATTTA
upper sequence: GLYMA06G35090.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os06g24594.5 (Oryza sativa), 3'ss of exon 2
gttagtttcttttgaattttttaaaaaaaaacata-tgaaaatcatcattttttgcttatcttaaagttatacttgcattgatcctttaactgtttaacagGTTTGTGAGGCCCTCAAAAATGAGTGAACGAAGAATAAATGAATATGTTGAAGGAAAATATGGAAAATTTGGAGTTCACAG
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catattgttttattcgtttgtgatgttaatcctttctgtattttcttgccttttcagtaatatcagttactatctctatcccctcgtgtgttgcttg-tagGTTTGTACACCCTACTGCGATGAGTGAGCAAAGAATAAGAGAATATATTGAAGGGAAATATGGGAAATTTGGAGTTGACCG
upper sequence: GLYMA06G35090.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0014g02090.t01 (Vitis vinifera), 3'ss of exon 2
---gttagtttcttttgaattttttaaaaaaaaacatatgaaaatcatcattttttgcttatcttaaagttatacttgcattgatcctttaactgtttaacagGTTTGTGAGGCCCTCAAAAATGAGTGAACGAAGAATAAATGAATATGTTGAAGGAAAATATGGAAAATTTGGAGTTCACAG
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taacttaattcaaataggatctattgagatgttaaattttttggttcatacctttttattgccaattttttattcttgttt---tcccatatttctgtcacagGTTTGTGAGGCCTTCAGAAATGTCTGAGCAAAGAATAAATGAATATATTGAAGGAAAATATGGAAAATTAGGGGTTGATCGMapped 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|7029064|gb|AW458847.1|AW458847EST: GTTCTAATGATTAGTGCGAAAACATTGCAAGTTGAAGACATTATCCACAG GTTTGTGAGGCCCTCAAAAATGAGTGAACGAAGAATAAATGAATATGTTGA
genomic: GTTCTAATGATTAGTGCGAAAACATTGCAAGTTGAAGACATTTTCCACAGgttttgatct ... tgtttaacagGTTTGTGAGGCCCTCAAAAATGAGTGAACGAAGAATAAATGAATATGTTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttttgcttatcttaaagttatacttgcattgatcctttaactgtttaacagGTTTGTGAGGCCCTCAAAAATGAGTGAACGAAGAATAAATGAATATGTTGAAGGAAAATATGGAAAATTTGGAGTTCACAG
ctttaac putative branch site (score: 3)
ttatcttaaagttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtttcttttgaattttttaaaaaaaaacatatgaaaatcatcattttttgcttatcttaaagttatacttgcattgatcctttaactgtttaacagGTTTGTGAGGCCCTCAAAAATGAGTGAACGAAGAATAAATGAATATGTTGAAGGAAAATATGGAAAATTTGGAGTTCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - gaaaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgcat