Sequence
atgc intronic sequence ATGC exonic sequencegtgagtctctctctttctttgtgatgtgtgtgaatgtgattgattaattatgtttggcttttgaccaaattgaattgttggtatttagGACTGAAAGTGGGACTTTTAAGGATGGGGATCTGCTTGTCAACAGGGATGGAGTTCGAATTGTCTCTCAGAATGATGTCGAAGCT
Basic information
species | Glycine max |
transcript | GLYMA17G06020.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G06020.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G29810.1 (Arabidopsis thaliana), 3'ss of exon 1
--------gtgagtctctctctttctttgtgatgtgtg------tgaatgtgattgatt----aattat-----gtttggcttttgaccaaattgaattgttggtatt-----tagGACTGAAAGTGGGACTTTTAAGGATGGGGATCTGCTTGTCAACAGGGATGGAGTTCGAATTGTCTCTCAGAATGATGTCGAAGCT
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gtatgtttctcgatctctctttctccatg-gatctgtggatagatagatgtatttgtgtgtggaaatgtctctggttttgtttttgaaggaggaaaggttttggttctctctgtagGACTCAAAGCGGTACGTTTAAGGATGGAGATCTACGTGTTAACAAGGATGGAGTTCGAATCATTTCTCAATTGGAGCCTGAAGTC
upper sequence: GLYMA17G06020.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G29810.3 (Arabidopsis thaliana), 3'ss of exon 1
--------gtgagtctctctctttctttgtgatgtgtg------tgaatgtgattgatt----aattat-----gtttggcttttgaccaaattgaattgttggtatt-----tagGACTGAAAGTGGGACTTTTAAGGATGGGGATCTGCTTGTCAACAGGGATGGAGTTCGAATTGTCTCTCAGAATGATGTCGAAGCT
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gtatgtttctcgatctctctttctccatg-gatctgtggatagatagatgtatttgtgtgtggaaatgtctctggttttgtttttgaagGAGGAAAGGTTTTGGTTCTCTCTGTAGGACTCAAAGCGGTACGTTTAAGGATGGAGATCTACGTGTTAACAAGGATGGAGTTCGAATCATTTCTCA-ATTG-----------
upper sequence: GLYMA17G06020.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv11s0016g01770.t01 (Vitis vinifera), 3'ss of exon 1
------gtgagtctctctctttctttgtga-tgtgtgtgaatgtgattg---attaattat--gtttggct-tttgaccaaattgaattgttggtattt---agGACTGAAAGTGGGACTTTTAAGGATGGGGATCTGCTTGTCAACAGGGATGGAGTTCGAATTGTCTCTCAGAATGATGTCGAAGCT
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gtaatcttctttctctctctctctctctctctctgaataaatatatttgtggatttgttgtttgtttgtttgtttggctaaccctaggtgcggattcgtggcagAACTCAGAGTGGGACTTTTATGGATGGTGATCTGCTGGTCAACAGGGATGGAGTTCGAATTGTGTCTAAGAGCGAAGCTGAAGTGMapped 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|298192633|gb|HO033067.1|HO033067EST: CTCAAACTCTCAGTTCCTGTCTCTGATCAATCTAATTTTGCCAAGTTCCT GACTGAAAGTGGGACTTTTAAGGATGGGGATCTGCTTGTCAACAGGGATGG
genomic: CTCAAACTCTCAGTTCCTGTGTCTGATCAATCTAATTTTGCCAAGTTCCTgtgagtctct ... tggtatttagGACTGAAAGTGGGACTTTTAAGGATGGGGATCTGCTTGTCAACAGGGATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgattgattaattatgtttggcttttgaccaaattgaattgttggtatttagGACTGAAAGTGGGACTTTTAAGGATGGGGATCTGCTTGTCAACAGGGATGGAGTTCGAATTGTCTCTCAGAATGATGTCGAAGCT
ttttgac putative branch site (score: 3)
attgattaattatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtctctctctttctttgtgatgtgtgtgaatgtgattgattaattatgtttggcttttgaccaaattgaattgttggtatttagGACTGAAAGTGGGACTTTTAAGGATGGGGATCTGCTTGTCAACAGGGATGGAGTTCGAATTGTCTCTCAGAATGATGTCGAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA