Sequence
atgc intronic sequence ATGC exonic sequence...ttattcaactatatgattgtaatttgctttgagacttagtgatatttctccttatgattatgcactctattaccagactaatgtctttatctttcaacagGTATTTTGTTCTGACAGCAAGTGATTTGGAAGAGTGGTATCGTAACCCTGAGTCTTTTCACCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGG
Basic information
species | Glycine max |
transcript | GLYMA16G19490.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G19490.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G151905_T03 (Zea mays), 3'ss of exon 8
---ttattcaactatatgattgtaatttgctttgagacttagtgatatttctccttatgattatgcactctattaccagactaatgtctttatctttcaacagGTATTTTGTTCTGACAGCAAGTGATTTGGAAGAGTGGTATCGTAACCCTGAGTCTTTTCACCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGG
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ctacagttctaacacatgatttcccccccattcgtagtttatttttgtttaggatttt--tctggccttcaagtaccttagaagt-ttgcaattattttgtagGTACTTCATTTTCACAGCAAAGGATTTGGAAGAGTGGTCAGAGAATCCTGAGTCCTTCCACCATGAGCAGAATTTGGTTCAGTGGACCGAGAAAAAACGG
upper sequence: GLYMA16G19490.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 8
ttattcaactatatgattgtaatttgctttga-gacttagtgatatttctccttatgattatgcactctatt-accagactaatgtctttatctttcaacagGTATTTTGTTCTGACAGCAAGTGATTTGGAAGAGTGGTATCGTAACCCTGAGTCTTTTCACCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGG
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--gttcatttattgtgttgtgaactgtgatggtgtcatggtcgttgtatgaatgatgcctggaagaaaagtttactgaaattaaccatcgacattccaacagGTATTTTGTACTAACAGCAAGTGACCTAGAGGAGTGGTACCAGAACCCTGAGTCCTTTCATCATGAGCAGGACATGATTCAGTGGACAGAGAAATTGAGG
upper sequence: GLYMA16G19490.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 7
-ttattcaacta--tatgattgtaatttgctttgagacttagtgatatttctccttatgattatgcactctattaccagactaatgtcttt-atctttcaacagGTATTTTGTTCTGACAGCAAGTGATTTGGAAGAGTGGTATCGTAACCCTGAGTCTTTTCACCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGG
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gttgtgagagcgcctttaacagtattatgtccctctacttt-tggt-tcctggtttttgaaaattaatttt--tgctagggcaatgctattgatatttcaacagGTATTTTGTTTTATCAGCAAGTGATTTGGAGGAGTGGTACCAGAATCCTGAGTCTTTTCATCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctccttatgattatgcactctattaccagactaatgtctttatctttcaacagGTATTTTGTTCTGACAGCAAGTGATTTGGAAGAGTGGTATCGTAACCCTGAGTCTTTTCACCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGG
gactaat putative branch site (score: 2)
tgtctttatctttc CT-rich tract
ttatgattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattcaactatatgattgtaatttgctttgagacttagtgatatttctccttatgattatgcactctattaccagactaatgtctttatctttcaacagGTATTTTGTTCTGACAGCAAGTGATTTGGAAGAGTGGTATCGTAACCCTGAGTCTTTTCACCATGAGCAGGATATGGTTCAGTGGACAGAAAAATTGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - tgctttg
- - - - - - - - - - - - - - - - - cttagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgcac