Sequence
atgc intronic sequence ATGC exonic sequence...gattgcagtattgcaatcccttgaccgagcaatgttacttatgtattgcatataagatttctgcctctgttcatgtatgacagaattttaacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGCACTTCATCCATTGGTACAGTTTACAAAGGGACTTT
Basic information
species | Glycine max |
transcript | GLYMA11G35570.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G35570.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G40270.1 (Arabidopsis thaliana), 3'ss of exon 3
--gattgcagtattgcaatcccttgaccgagcaatgttacttatgtattgcatataagatttctgcctctg--ttcatgtatgacagaattttaacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGCACTTCATCCATTGGTACAGTTTACAAAGGGACTTT
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gtaatttcctttcttgaattgttttggcaagtgcacttacttg-gagtagtaaccaaatttgtctcatttggtttcatcaatgtgtggtttttgatac--tcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTAGTAATGTCATTGGATCTTGTCCCATTGGGAAGTTGTTCAAAGGAACATT
upper sequence: GLYMA11G35570.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G56050.2 (Arabidopsis thaliana), 3'ss of exon 4
----------------------------gattgcagtattgcaatcccttgaccgagcaatgttacttatgtattgcatataagatttctgcctctgttcatgtatgacagaattttaacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGCACTTCATCCATTGGTACAGTTTACAAAGGGACTTT
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gtaattgcctttctactccctgatacaaaaatgtgaagtggcattgttggttctagaagatgagatttaatagtcgctc--cactttttttcttttcgatattaatgatgtatgatttgt-tactcagGTGTCCCCAAACTCAAAAGATCTGAGATTGAAGCTGCCTGTGAAGATTTTAGTAATGTCATTGGGTCTTGCCCCATTGGTACATTGTTCAAAGGGACGCT
upper sequence: GLYMA11G35570.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0067g01550.t01 (Vitis vinifera), 3'ss of exon 6
--gattgcagtattgcaatcccttgaccgagcaatgttacttatgtattgcatataagatttctgcctctgttcatgtatgacagaattttaacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGCACTTCATCCATTGGTACAGTTTACAAAGGGACTTT
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gtaattgttccaaccccctcttctgttccctgtatattgctcatgt-tcgtattaatggttctgtgccttatgtatgcatgacctgatatctgcattt-cagGTGTACCAAAGCTGAAGAGGTCGGAGCTTGAAACAGCTTGTGAAGACTTCAGTAATGTAATTGGTTCTTCGTCAATAGGGACCGTGTACAAAGGAACATTMapped 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|254314364|gb|GR831949.1|GR831949EST: ACCTTGGGCAACAGGATTAAGTGGACAGCTTCAGAAGGCATTTGTAACAG GTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTA
genomic: ACCTTGGGCAACAGGATTAAGTGGACAGCTTCAGAAGGCATTTGTAACAGgtaaatctca ... acattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcatataagatttctgcctctgttcatgtatgacagaattttaacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGCACTTCATCCATTGGTACAGTTTACAAAGGGACTTT
ttttaac putative branch site (score: 2)
cattttc CT-rich tract
agaattttaacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattgcagtattgcaatcccttgaccgagcaatgttacttatgtattgcatataagatttctgcctctgttcatgtatgacagaattttaacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGCACTTCATCCATTGGTACAGTTTACAAAGGGACTTT
- -tgcagta
- - - - - - -caatccc
- - - - - - - - - - - - - - -caatgtt
- - - - - - - - - - - - - - - - - - - - - - - tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatga