Sequence
atgc intronic sequence ATGC exonic sequencegtataattttctagattttattttgtagatatctttttactagtgatcaataaattaacaaatctataaattaacaaatatttcaaaatctactgcaagGTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACAGCTGCCGTTCATAAGGATCCAGTCACAAGG
Basic information
species | Glycine max |
transcript | GLYMA17G03920.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G03920.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 10
gtataattttctagattttattttgtagatatctttttactagtgatcaataaattaacaaatctataaattaacaaatatttcaaaatctactgcaagGTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACAGCTGCCGTTCATAAGGATCCAGTCACAAGG
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--gtaaggaataggcaatcagtttcatcatctctcttt-ttattgctccattaactcaatatttcattatctaaaaaat-taactcactgttttgta-gGTATGTTGAGAAAACTGGACACAGAGCAGTGTACACAACTGGAAAAGGAGCTTCTGCTGTTGGACTCACCGCAGCAGTTCACAAGGATCCAGTAACACGG
upper sequence: GLYMA17G03920.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 8
gtataattttctagattttattttgtagatatctttttactagtgatcaataaatt-aacaaatctataaattaacaaatatttcaaaatctactgcaagGTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACAGCTGCCGTTCATAAGGATCCAGTCACAAGG
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--------gtaagaaaactatcctg-----accagcttact--taattaatatctttggtgaatattttcattaac---tgcattaatgttt-cttctagGTATGTTGAAAAAACTGGTCAAAGAGCTGTCTACACGACTGGAAAGGGAGCTTCTGCTGTTGGTCTAACCGCAGCAGTACACAAAGATCCAGTTACAAGG
upper sequence: GLYMA17G03920.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 9
gtataattttctagattttattttgtagatatctttttactagtgatcaataa-attaacaaatctataaattaacaaatatttcaaaatctactgcaagGTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACAGCTGCCGTTCATAAGGATCCAGTCACAAGG
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gtaagaccgaccccaattaatct-gtgagtggcttg--actggt--ttgataatagcaatcggttgttaacttccaaaaaaac---attttttccccaagGTATGTTGAAAAGACTGGGCAGAGAGCTGTGTATACCACTGGTAAAGGTGCTTCCGCTGTGGGTCTCACAGCATCAGTACACAAGGATCCTGTCACACGCMapped 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|22523731|gb|BU082542.1|BU082542EST: CCAGGGACAGCGAAGTCTCAGTTTCTCAA GTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGC
genomic: CCAGGGACAGCGAAGTCTCAGTTTCTCAAgtataatttt ... ctactgcaagGTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGC
EST:
gi|208130013|gb|GD930642.1|GD930642EST: AATGTTCTTCTTCTGGGTGATCCAGGGACAGCGAAGTCTCAGTTTCTCAA GTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGC
genomic: AATGTTCTTCTTCTGGGTGATCCAGGGACAGCGAAGTCTCAGTTTCTCAAgtataatttt ... ctactgcaagGTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcaataaattaacaaatctataaattaacaaatatttcaaaatctactgcaagGTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACAGCTGCCGTTCATAAGGATCCAGTCACAAGG
aattaac putative branch site (score: 2)
ataaattaacaaatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataattttctagattttattttgtagatatctttttactagtgatcaataaattaacaaatctataaattaacaaatatttcaaaatctactgcaagGTATGTTGAGAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACAGCTGCCGTTCATAAGGATCCAGTCACAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC