Sequence
atgc intronic sequence ATGC exonic sequencegtaaatgcatacttgcacatagtttttctacttttttttgtctcaaatgttatgctccattttttatttgaaatttcttcgataaagcctgcattgttatacattttttaagtgataacatgacaaacagCTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCAGCAATGCGATTCATTCCTGATCAACTTCCAAGAGAATCTATTTCAAACA
Basic information
species | Glycine max |
transcript | GLYMA18G47050.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G28350.2 (Arabidopsis thaliana), 3'ss of exon 8
gtaaatgcatacttgcacatagtttttctacttttttttgtctcaaatgttatgctccattttttatttgaaatttcttcgataaagcctgcattgttatacattttttaagtgataacatgacaaacagCTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCAGCAATGCGATTCATTCCTGATCAACTTCCAAGAGAATCTATTTCAAACA
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gtagttagttatttcggttcatttcttct-ctgcatcattttcagtaaattatact---ttttaactttcaaatgtgagcgcttgagt-tgc-ttttcatgcacctta-aagtgattaaatgacaaacagCTTTCCACAGTAAGAGAGTTGTCCATCATGACTGCAAAGAGCCATCCAGCAGCAATGGGATTTGTTCCTGATCAGCACCTGAGAGAAGGCGAATTGGATA
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaaatgcatacttgcacatagtttttctacttttttttgtctcaaatgttatgctccattttttatttgaaatttcttcgataaagcctgcattgttatacattttttaagtgataacatgacaaacagCTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCAGCAATGCGATTCATTCCTGATCAACTTCCAAGAGAATCTATTTCAAACA
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gtagttagttattccggttcatttcttct-ctgcatcattttcagtaaattatact---ttttaacttccaaatgtgaacgcttgagt-tgc-ttttcatgcacctta-aagtgattaaatgacaaacagCTTTCCACAGTAAGAGAGTTGTCCATCATGACTGCAAAGAGCCATCCAGCAGCAATGCGATTTGTTCCTGATCAGCACCCGAGAGAAGGCGAATTGGATG
upper sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 8
gtaaatgcatacttgcacatagtttttctacttttttttgtctc---aaatgttatgctccattttttatttgaaatttcttcgataaagcctgcattgtt-atacattttttaagtgataacatgacaaacagCTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCAGCAATGCGATTCATTCCTGATCAACTTCCAAGAGAATCTATTTCAAACA
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gtaaaaaaaaaaaactatctaattttatgggtggttgtgaatttgcaaagtttcgagttgcataatgaatcagagaattgt--gatggaacatttattcttcatgcattttt-aagtgataaaatgacaaacagCTTTCTACAGTACGAGAGCTCTCTATCATGACTGCAAAGACCCATCCTTCAGCGATGCGTTTTATCCCTGATCAGCTTCCAAGAGAGTACATCTCAAAGAMapped 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|14259972|gb|BG882880.1|BG882880EST: CTCCTTCAGGAAATCCAGATTTACAG CTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCA
genomic: CTCCTTCAGGAAATCCAGATTTACAGgtaaatgcat ... tgacaaacagCTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttcgataaagcctgcattgttatacattttttaagtgataacatgacaaacagCTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCAGCAATGCGATTCATTCCTGATCAACTTCCAAGAGAATCTATTTCAAACA
tgataac putative branch site (score: 2)
ttatacattttttaag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatgcatacttgcacatagtttttctacttttttttgtctcaaatgttatgctccattttttatttgaaatttcttcgataaagcctgcattgttatacattttttaagtgataacatgacaaacagCTTTCTGCAGTACGAGAACTTTCAATTATGACTGCCAAGAGCCATCCTGCAGCAATGCGATTCATTCCTGATCAACTTCCAAGAGAATCTATTTCAAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA