Sequence
atgc intronic sequence ATGC exonic sequencegtattttccttgaattggagaatgtatctatttttggagataatttccttcatgcttacttaagatttccattatatcaagacttctctcatgaagcaaccacagACCCTTCATCTTTCAGGGATAGTATTAGGCTTGCTTCAATGCCTGATTCATTTGACTTGGATAGGGGATTGCTTTTGGCAGTTCAAGCAATACAA
Basic information
species | Glycine max |
transcript | GLYMA20G02060.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G02060.1 (Glycine max), 3'ss of exon 12
lower sequence: AT2G01460.1 (Arabidopsis thaliana), 3'ss of exon 12
------------------------------gtattttccttga-attggagaatgtatc-tatttttggagataatttccttcatgcttac-ttaagatttccattatatcaagacttctctcatgaagcaaccacagACCCTTCATCTTTCAGGGATAGTATTAGGCTTGCTTCAATGCCTGATTCATTTGACTTGGATAGGGGATTGCTTTTGGCAGTTCAAGCAATACAA
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gtatgtccgaattttttgaagattgatggtgttttccctttgatattttccctcgcttagtgttatggtcgatgaaatgtatttcagtagcattattattgcatttatgcctaggctt-tctcatcaagcagctacagA---TTCCTCTTTCAGGGATAATATGCGGCTTGTTCCTATGCCTGATTCATACGACTTGGATAGAGGGTTGCTACTTTCTGTTCAAGCAATACAG
upper sequence: GLYMA20G02060.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv01s0011g04960.t01 (Vitis vinifera), 3'ss of exon 12
------gtattttccttgaattggagaatgtatctatttttgg----------agataatttccttcatgcttacttaagatttccattatatcaagacttctctcatgaagcaaccacagACCCTTCATCTTTCAGGGATAGTATTAGGCTTGCTTCAATGCCTGATTCATTTGACTTGGATAGGGGATTGCTTTTGGCAGTTCAAGCAATACAA
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gtatgggtactctactgagaggatatattttttctgtgttcagtagttttgctaggtagctgtctcctt-cttgtgtgatcacttcat-agGTTTAGACTTCTCTCATGAAGCAACCACAGATCCTTCATCTTTCAGGGATACCCTGCGTCTTGCTCCAATGCCTGATTCTTATGACTTGGATAGAGGATT-------------------------Mapped 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|6482090|gb|AW201361.1|AW201361EST: ATGGCATTTCATATCTTCAGATTCTTCCCAGCCTGACAACTCAGTCCTAG ACCCTTCATCTTTCAGGGATAGTATTAGGCTTGCTTCAATGCCTGATTCAT
genomic: ATGGCATTTCATATCTTCAGATTCTTCCCAGCCTGACAACTCAGTCCTAGgtattttcct ... gcaaccacagACCCTTCATCTTTCAGGGATAGTATTAGGCTTGCTTCAATGCCTGATTCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgcttacttaagatttccattatatcaagacttctctcatgaagcaaccacagACCCTTCATCTTTCAGGGATAGTATTAGGCTTGCTTCAATGCCTGATTCATTTGACTTGGATAGGGGATTGCTTTTGGCAGTTCAAGCAATACAA
tgcttac putative branch site (score: 2)
attatatcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttccttgaattggagaatgtatctatttttggagataatttccttcatgcttacttaagatttccattatatcaagacttctctcatgaagcaaccacagACCCTTCATCTTTCAGGGATAGTATTAGGCTTGCTTCAATGCCTGATTCATTTGACTTGGATAGGGGATTGCTTTTGGCAGTTCAAGCAATACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA