Sequence
atgc intronic sequence ATGC exonic sequence...ctagtgggatgaagctattttttttttttgcttgtcacatgtacatttatacttgagttttgtcatgtgtttaatttccattctgttgatatttcaccagGTTGATGATACAAAAGTTATAAGTTTCCTTCTTTCAACAGAGATTATTCCGTTGTGCCTGCGCAGTATGGAAATGGGCAGTGAATTGTCAAAAACT
Basic information
species | Glycine max |
transcript | GLYMA14G02480.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G02480.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G20800.1 (Arabidopsis thaliana), 3'ss of exon 5
--------------------------------------------------------------------------------------------------------------ctagtgggatgaagctattttttttttttgcttgtcacatgtacatttatacttgagttttgtcatgtgtttaatttccattctgttgatatttcaccagGTTGATGATACAAAAGTTATAAGTTTCCTTCTTTCAACAGAGATTATTCCGTTGTGCCTGCGCAGTATGGAAATGGGCAGTGAATTGTCAAAAACT
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gtacaccatcccgtcccttttctgttccttgtttctctttggttttgatgttccccacctactttttgctgaaagcaaaggactaaaaattgtgttagtggtcttggtttctaaagtagagaatttatattcttttttggtggttagtgtatgaa---ataagaaaggttcatcggatcctta--tttcactttgtt-------ttccagGTTGATGATACAGAGGTCATTAGCTTCCTTCTTTCAACTGAAATTATTCCTCTGTGCCTCCGTACCATGGAAATGGGGAGTGAGCTGTCAAAAACA
upper sequence: GLYMA14G02480.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 7
-ctagtgggatgaagctattttttttttttgcttgtcacatgtacatttatactt--gagttttgtcatgtgtttaatttccattctgttgatatttcaccagGTTGATGATACAAAAGTTATAAGTTTCCTTCTTTCAACAGAGATTATTCCGTTGTGCCTGCGCAGTATGGAAATGGGCAGTGAATTGTCAAAAACT
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attaattg--ctatattgtttgtattgtttgtaaggtttgt-tactcttgtgattccaagtattgctggttattaccttttttattttttcccctctttccagGTTGATGATACAGAAGTTATTAGTTTCCTTCTCTCAACAGAAATAATTCCGCTGTGCCTACGCACCATGGAGATGGGGAGTGAATTGTCAAAAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatacttgagttttgtcatgtgtttaatttccattctgttgatatttcaccagGTTGATGATACAAAAGTTATAAGTTTCCTTCTTTCAACAGAGATTATTCCGTTGTGCCTGCGCAGTATGGAAATGGGCAGTGAATTGTCAAAAACT
tgttgat putative branch site (score: 4)
tttcacc CT-rich tract
tgtttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctagtgggatgaagctattttttttttttgcttgtcacatgtacatttatacttgagttttgtcatgtgtttaatttccattctgttgatatttcaccagGTTGATGATACAAAAGTTATAAGTTTCCTTCTTTCAACAGAGATTATTCCGTTGTGCCTGCGCAGTATGGAAATGGGCAGTGAATTGTCAAAAACT
- - - - - - - - - - - - - - tgcttgt
- - - - - - - - - - - - - - - - - - -catgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgtg