Sequence
atgc intronic sequence ATGC exonic sequence...tcatgagacttgttctacgctctcattttctctggatgcatttacttctctgttttcaccagcttgacattgctaattgtcgttttatgctttcttgcagTTGATATATAGACCTGACAATGGAGAGATACTAGGAGTTCATATTTTTGGTTTGCATGCAGCAGATCTCATCCATGAAGCATCCAATGCAATTGCATTAG
Basic information
species | Glycine max |
transcript | GLYMA07G37050.2 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G145595_T01 (Zea mays), 3'ss of exon 12
-------------------------------------------tcatg---agacttgttctacgctctcattttctctggatgcatttacttctctgttttcacc-agcttgacattgctaattgtcgttttatg--ctttcttg---cagTTGATATATAGACCTGACAATGGAGAGATACTAGGAGTTCATATTTTTGGTTTGCATGCAGCAGATCTCATCCATGAAGCATCCAATGCAATTGCATTAG
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gtagtaatgcggtagtgtgtttccaccctgttgcattctaaatttatgcacggagaattccagtggatacattaaccagacctatgctagggagcctgtatccatggaacctctaaatttgaagtgacgatacatgtactattttgcctcagATGATTTATCGCCCTGACACCGGAGAAATTCTTGGAGTTCATATTTTGGGCTTGCATGCTGCTGATCTCATCCATGAGGCATCAAATGCCATTGCCCTTG
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 12
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 12
-tcatgagacttgttctacgctctcattttctc---tggatgcatttacttctctgtt--ttcaccagcttgacattgctaattgtcgttttatgctttcttgcagTTGATATATAGACCTGACAATGGAGAGATACTAGGAGTTCATATTTTTGGTTTGCATGCAGCAGATCTCATCCATGAAGCATCCAATGCAATTGCATTAG
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gtgaagagaagaaccaaaaattgaaataaaaaaagatagttgtatatagttctggagtgacttgcgaagataagatatctgaa---cactctcttcatgtgaacagATGATATACAGACCTGACAATGGTGAAATCCTTGGAGTTCATATATTTGGATTGCATGCTGCTGATCTTATCCATGAAGCATCAAACGCGATTGCTTTAG
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 12
lower sequence: AT3G16950.2 (Arabidopsis thaliana), 3'ss of exon 12
tcatgagacttgttctacgctctcattttctctggatgcatttacttctctgttttcaccagcttgacattgctaattgtcgttttatgctttcttgcagTTGATATATAGACCTGACAATGGAGAGATACTAGGAGTTCATATTTTTGGTTTGCATGCAGCAGATCTCATCCATGAAGCATCCAATGCAATTGCATTAG
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---------------------gtgggagaagcaaaagttgttgatttatttatgtctcatgaaagaacatag--agatctcattgcttttcattatgcagATGATATACCGACCTGACAATGGTGAAATCTTAGGAGTTCATATATTTGGACTGCATGCAGCTGACCTTATCCATGAAGCTTCTAATGCGATTGCTCTAGMapped 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|58018355|gb|CX705097.1|CX705097EST: AAGCTAACACAAAGGCTCTAGCAGAAAACGAAGGAGAGGGACTAGCCAAG TTGATATATAGACCTGACAATGGAGAGATACTAGGAGTTCATATTTTTGGT
genomic: AAGCTAACACAAAGGCTCTAGCAGAAAACGAAGGAGAGGGACTAGCCAAGgttatacttt ... tttcttgcagTTGATATATAGACCTGACAATGGAGAGATACTAGGAGTTCATATTTTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctctgttttcaccagcttgacattgctaattgtcgttttatgctttcttgcagTTGATATATAGACCTGACAATGGAGAGATACTAGGAGTTCATATTTTTGGTTTGCATGCAGCAGATCTCATCCATGAAGCATCCAATGCAATTGCATTAG
tgctaat putative branch site (score: 2)
ttttatgctttctt putative PPT
ttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatgagacttgttctacgctctcattttctctggatgcatttacttctctgttttcaccagcttgacattgctaattgtcgttttatgctttcttgcagTTGATATATAGACCTGACAATGGAGAGATACTAGGAGTTCATATTTTTGGTTTGCATGCAGCAGATCTCATCCATGAAGCATCCAATGCAATTGCATTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC