Sequence
atgc intronic sequence ATGC exonic sequencegtatggaggaatctaaactggcatgatctttagtctacccttctcacctttttttctttaagagttcactgtaaactaaaatcccttttattgaattgtaaattacttgaaatgagatagtgctaataacttgccaatactgtttgtctcagGTGGCAGACACCATCGGTTCAAAAGAGGCTACAAAAATGTGATTGATGAAGCTATTCGTTTG
Basic information
species | Glycine max |
transcript | GLYMA20G32030.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G32030.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G17530.3 (Arabidopsis thaliana), 3'ss of exon 12
gtatggaggaatctaaactggcatgatctttagtctacccttctcacctttttttctttaagagttcactgtaaactaaaatcccttttattgaattgtaaattacttgaaatgagatagtgctaataacttgccaatactgtttgtctcagGTGGCAGACACCATCGGTTCAAAAGAGGCTACAAAAATGTGATTGATGAAGCTATTCGTTTG
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----------------------------------------------------------------------gttagccaacaatt-taccaccatgttgttaattttctc---tgtgac----tttttcactgacccagact---tattttagGCGGAAAGCATCACAGGTTCAAAAGAGGTTACAAGAATGTCATTGACGAAGCTATTCGCTTG
upper sequence: GLYMA20G32030.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 12
gtatggaggaatctaaactggcatgatctttagtctacccttctcacctttttttctttaagagttcactgtaaactaaaatcccttttattgaattgtaaattacttgaaatga-gatagtgctaataacttgccaatactgtttgtctcagGTGGCAGACACCATCGGTTCAAAAGAGGCTACAAAAATGTGATTGATGAAGCTATTCGTTTG
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---------------------------------------------------------------gtatgttg-aaactgaaatggcat-------aatgtccatatcatataatgatgaatttgttcttaactca-----agggttccttatagGAGGAAAGCACCACCGGTTCAAAAGGGGCTATAAAAATGTCATTGATGAAGCTATTCGCTTG
upper sequence: GLYMA20G32030.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ15375 (Selaginella moellendorffii), 3'ss of exon 10
gtatggaggaatctaaactggcatgatctttagtctacccttctcacctttttttctttaagagttcactgtaaactaaaatcccttttattgaattgtaaattacttgaa-atgagatagtgctaataacttgccaatactgtttgtctcagGTGGCAGACACCATCGGTTCAAAAGAGGCTACAAAAATGTGATTGATGAAGCTATTCGTTTG
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-----------------------------------------------------------------------------------------------gtatgttttgatcaaatatgcaacggtgtgattgaatctttcctgttcctt-ttacagGGGGAAAGCATCACCGGTTCAAGAGAGGATACAAAAATGTGATTGATGAAGGCATACGCTTG
upper sequence: GLYMA20G32030.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ24972 (Selaginella moellendorffii), 3'ss of exon 10
gtatggaggaatctaaactggcatgatctttagtctacccttctcacctttttttctttaagagttcactgtaaactaaaatcccttttattgaattgtaaattacttgaa-atgagatagtgctaataacttgccaatactgtttgtctcagGTGGCAGACACCATCGGTTCAAAAGAGGCTACAAAAATGTGATTGATGAAGCTATTCGTTTG
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-----------------------------------------------------------------------------------------------gtatgtattgatcaaatatgcaacggtgtgattgaatctgtcctgttcctt-ttacagGGGGAAAGCATCACCGGTTCAAGAGAGGATACAAAAATGTGATTGATGAAGGCATACGCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaattacttgaaatgagatagtgctaataacttgccaatactgtttgtctcagGTGGCAGACACCATCGGTTCAAAAGAGGCTACAAAAATGTGATTGATGAAGCTATTCGTTTG
taataac putative branch site (score: 1)
tttgtctc putative PPT
taataactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggaggaatctaaactggcatgatctttagtctacccttctcacctttttttctttaagagttcactgtaaactaaaatcccttttattgaattgtaaattacttgaaatgagatagtgctaataacttgccaatactgtttgtctcagGTGGCAGACACCATCGGTTCAAAAGAGGCTACAAAAATGTGATTGATGAAGCTATTCGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC