Sequence
atgc intronic sequence ATGC exonic sequencegttagttggaaatccttatgtaatactaatttgatataattatctgtgatctgaattctgagttcatctgattctttttgtttctaagagtttatatgcctaataattaaggaatattgcacagGCTTTTCATGGGAAAAAATGGGAGAAATTCAACAGTGAAAAGGTAGCGGTACTCGCCTATGCCCGAATTCAAGGAAAATCTGCTCTTATTGCTCATTTTC
Basic information
species | Glycine max |
transcript | GLYMA06G17250.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G17250.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g01240.2 (Oryza sativa), 3'ss of exon 13
gttagttggaaatccttatgtaatactaatttgatataattatctgtgatctgaattctgagttcatctgattctttttgtttctaagagtttatatgcctaat-aattaaggaatattgcacagGCTTTTCATGGGAAAAAATGGGAGAAATTCAACAGTGAAAAGGTAGCGGTACTCGCCTATGCCCGAATTCAAGGAAAATCTGCTCTTATTGCTCATTTTC
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-------------------------ttaaaaagtatttctgccctgtagagtactgccagttttcccctggcattttctaattgaaagtatgcataggattaattggacttgacatttgctgcagACATTTAATGGCAAGAAATGGGAGAAATTCAATAGTGAAAAGGTGGCGTCGCTCGCATACGCCCGGATTCAAGGAAGGAGTGCTTTGATTGCTCATTTTC
upper sequence: GLYMA06G17250.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G451716_T01 (Zea mays), 3'ss of exon 13
gttagttggaaatccttatgtaatactaatttgatataattatctgtgatctgaattctgagttcatctgattctttttgtttctaagagtttatatgcctaataattaaggaatattgcacagGCTTTTCATGGGAAAAAATGGGAGAAATTCAACAGTGAAAAGGTAGCGGTACTCGCCTATGCCCGAATTCAAGGAAAATCTGCTCTTATTGCTCATTTTC
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--------------------aaagattatgaaggctaaatcttcgaatgcatgcacgcttcataaatagaaatggaag-gagtataaaaatgaagaactttaacacatctg---tctcttgcagACATTTCATGGGAAAAGGTGGGAGAAATTCAACAGTGAGAAAGTGGCCTCACTTGCTTATGCTAGAATCCAAGGAAAATCAGCTCTAGTTGCTCATTTCC
upper sequence: GLYMA06G17250.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv17s0000g00240.t01 (Vitis vinifera), 3'ss of exon 13
----------gttagttggaa-atccttatg--taatact-------aatttgatataattatctgtgatctg--aattctgagttcatctgattctttttgtttctaagagtttatatgcctaataattaaggaatattgcacagGCTTTTCATGGGAAAAAATGGGAGAAATTCAACAGTGAAAAGGTAGCGGTACTCGCCTATGCCCGAATTCAAGGAAAATCTGCTCTTATTGCTCATTTTC
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gttagaatccatgcattgtaatataattatacttaatacttttttcggctttcaaaggaaagcttcttgtctacagaatttcataaggtctgcaactgatatggactgagaactgctaatcagaatg--tatcatatatttcacagGCATTCAATGGTAAAAAGTGGGAGAAGTTCAACAGTGAGAAGGTGGCATCTCTTGCATATGCTCGAATTCAAGGAAAAACTGCTCTTATTGCTCATTTCCMapped 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|16105757|gb|BI893497.1|BI893497EST: ATGCATTCATCAATATGATTGATCCTGGACAAATTATTCCATTCCACCAA GCTTTTCATGGGAAAAAATGGGAGAAA
genomic: ATGCATTCATCAATATGATTGATCCTGGACAAATTATTCCATTCCACCAGgttagttgga ... tattgcacagGCTTTTCATGGGAAAAAATGGGAGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattctttttgtttctaagagtttatatgcctaataattaaggaatattgcacagGCTTTTCATGGGAAAAAATGGGAGAAATTCAACAGTGAAAAGGTAGCGGTACTCGCCTATGCCCGAATTCAAGGAAAATCTGCTCTTATTGCTCATTTTC
gcctaat putative branch site (score: 3)
taataattaaggaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttggaaatccttatgtaatactaatttgatataattatctgtgatctgaattctgagttcatctgattctttttgtttctaagagtttatatgcctaataattaaggaatattgcacagGCTTTTCATGGGAAAAAATGGGAGAAATTCAACAGTGAAAAGGTAGCGGTACTCGCCTATGCCCGAATTCAAGGAAAATCTGCTCTTATTGCTCATTTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA