Sequence
atgc intronic sequence ATGC exonic sequence...ggtgatgggtccaccttctcaacttgtttattaattagtcacataatccaatataattttcaaatactaccatgatatgaaaccaacaaaataaaaaaagAGAAATAGTGATAATACAATGGGGATACTTTTCGCAATGATACTCTCGGACATATATGTACACAATGTCAATTGTGGGCCTGGCCATGGAATCAGCATTG
Basic information
species | Glycine max |
transcript | GLYMA05G08710.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G08710.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g45060.1 (Oryza sativa), 3'ss of exon 5
ggtgatgggtccaccttctcaacttgtttattaattagtcacataatccaatataattttcaaatactaccatgatatgaaaccaacaaaataaaaaaagAGAAATAGTGATAAT-ACAATGGGGATACTTTTCGCAATGATACTCTCGGACATATATGTACACAATGTCAATTGTGGGCCTGGCCATGGAATCAGCATTG-------------
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-----------aaacttcaagagtactgaactatgaagctatcttttgcagt-tactcaacaaaagc-agaaaaacatagttaacatgtaatttttggtcgaatatgatgcagGTGATGACTGCGTCTCCATTCA-AACAGGATGCAGCAATATAAATATACACAATGTGAATTGTGGACCTGGCCATGGAATCAGCATTGGAGGCCTAGGCCG
upper sequence: GLYMA05G08710.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g44970.1 (Oryza sativa), 3'ss of exon 5
ggtgatgggtccaccttctcaacttgtttattaattagtcacataatccaatataattttcaaatactaccatgatatgaaaccaacaaaataaaaaaagAGAAATAGTGATAAT-ACAATGGGGATACTTTTCGCAATGATACTCTCGGACATATATGTACACAATGTCAATTGTGGGCCTGGCCATGGAATCAGCATTG-------------
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-----------aaacttcaagagtactgaactatgaagctatcttttgcagt-tactcaacaaaagc-agaaaaacatagttaacatgtattttttggtcgtatatgatgcagGTGATGACTGCGTCTCCATTCA-AACAGGATGCAGCAATATAAATATACACAATGTGAATTGTGGACCTGGCCATGGAATCAGCATTGGAGGCCTAGGCCG
upper sequence: GLYMA05G08710.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G037431_T01 (Zea mays), 3'ss of exon 5
ggtgatgggtccaccttctcaacttgtttattaattagtcacataatccaat--ataattttcaaatactaccatgatatgaaaccaacaaaataaaaaaagAGAAATAGTGATAATACAATGGGGATACTTTTCGCAATGATACTCTCGGACATATATGTACACAATGTCAATTGTGGGCCTGGCCATGGAATCAGCATTG-------------
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-cctgtaaaccctgcatgtcaaaggacatgtttcagagtta-agagtacactgaaaaactgctgtaaactagcataacattcctttgtcctattcgatgcag-
upper sequence: GLYMA05G08710.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv14s0066g01060.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------------------------ggtgatgggtccaccttctcaacttgtttattaattagtcacataatccaatataattttcaaatact--accatgatatgaaaccaacaaaataaaaaaagAGAAATAGTGATA-ATACAATGGGGATACTTTTCGCAATGATACT---------CTCGGACATATATGTACACAATGTCAATTGTGGGCCTGGCCATGGAATCAGCATTG-------------
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gtaaatccaaaaaccttaaaagtcttgcgacttgtccttttgagaacacaagcaccacggctggtc-atttttgctagtagaagcgtaacttgcgcaaaattatggcagagtcctcacaaaattggtcatcattgacatctaagttcatcagtaacgttaactcataatgcattctacagGAGACGACTGTGTATCAATACAGACAGGATGCTCAAATATATTCGTACACAATGTGAATTGTGGACCTGGTCATGGAATCAGCATTGGAGGTCTAGGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atccaatataattttcaaatactaccatgatatgaaaccaacaaaataaaaaaagAGAAATAGTGATAATACAATGGGGATACTTTTCGCAATGATACTCTCGGACATATATGTACACAATGTCAATTGTGGGCCTGGCCATGGAATCAGCATTG
atataattttcaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtgatgggtccaccttctcaacttgtttattaattagtcacataatccaatataattttcaaatactaccatgatatgaaaccaacaaaataaaaaaagAGAAATAGTGATAATACAATGGGGATACTTTTCGCAATGATACTCTCGGACATATATGTACACAATGTCAATTGTGGGCCTGGCCATGGAATCAGCATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
ggtgatg
- - - - - - -ccttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaacaa