Sequence
atgc intronic sequence ATGC exonic sequencegtagattaaggatacttaagagttatatgcatgctgaaaatatttctcaatcttttcctaatggtttattctattgtattgacttttcagGGGTTCAATGGTGCTGATCTTCGTAATGTTTGTACTGAAGCTGGTCTGTTTGCTATTCGTGCAGAACGTGATTATGTTATTCATGGAGATTTCATCAAG
Basic information
species | Glycine max |
transcript | GLYMA06G01200.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G01200.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g40560.1 (Oryza sativa), 3'ss of exon 8
gtagattaaggatacttaagagtta-tatgcatgctgaaaatatttctcaatcttttcctaatggtttattctattgtattgacttttcagGGGTTCAATGGTGCTGATCTTCGTAATGTTTGTACTGAAGCTGGTCTGTTTGCTATTCGTGCAGAACGTGATTATGTTATTCATGGAGATTTCATCAAG
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-----------------gtgagttaacctacttaacctgagcatggtaaaatcttgttttg-cattttgttctaac-tgaggctgttccagGGCTTCAATGGTGCCGATCTGCGCAATGTCTGCACTGAGGCTGGCATGGCTGCTATTCGAGCAGAGCGCGACTATGTCATTCATGAAGATTTCATGAAG
upper sequence: GLYMA06G01200.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G171604_T01 (Zea mays), 3'ss of exon 8
gtagattaaggatacttaagagttatatgcat-gctgaaaatatttctcaatcttttcctaatggtttattctattgtattgacttttcagGGGTTCAATGGTGCTGATCTTCGTAATGTTTGTACTGAAGCTGGTCTGTTTGCTATTCGTGCAGAACGTGATTATGTTATTCATGGAGATTTCATCAAG
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-----------------gtgagttagttgtattatcatatctaacctctaatcccattgtatagtttcaccttactctcctggtttt--agGGTTTCAATGGTGCTGATCTTCGGAACGTGTGCACTGAAGCTGGTATGGCTGCAATTCGTGCAGAGAGAGATTATGTAGTCCACGAAGACTTCATGAAG
upper sequence: GLYMA06G01200.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S91_182V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------gtagattaaggatacttaagagttatatgcatgctgaaaatatttctcaatcttttcctaatggtttattctattgtattgacttttcagGGGTTCAATGGTGCTGATCTTCGTAATGTTTGTACTGAAGCTGGTCTGTTTGCTATTCGTGCAGAACGTGATTATGTTATTCATGGAGATTTCATCAAG
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ttgttgccatttttgagattgagaatgttatttgttggtgcattttatgaacttaatgtgtagaggattt-tgtttgttggctctcttttctgtactt--cagGGGTTCAATGGAGCCGATCTTCGTAATGTCTGCACTGAAGCGGGCATGTTCGCTATCCGGGCTGATCGTGACTATGTTGTGCAAGAGGATTTCATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaatatttctcaatcttttcctaatggtttattctattgtattgacttttcagGGGTTCAATGGTGCTGATCTTCGTAATGTTTGTACTGAAGCTGGTCTGTTTGCTATTCGTGCAGAACGTGATTATGTTATTCATGGAGATTTCATCAAG
tattgac putative branch site (score: 2)
cttttc CT-rich tract
tttattctattgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagattaaggatacttaagagttatatgcatgctgaaaatatttctcaatcttttcctaatggtttattctattgtattgacttttcagGGGTTCAATGGTGCTGATCTTCGTAATGTTTGTACTGAAGCTGGTCTGTTTGCTATTCGTGCAGAACGTGATTATGTTATTCATGGAGATTTCATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT