Sequence
atgc intronic sequence ATGC exonic sequence...atctttgtcaaatttgtttttatacttctcagaagatatcttatgttgttactagttctacttgccatctcttgttatgacttttatttttctcatatagGCAGCAGAGTTCAATGTCCAAGCTGCTCAACAAGGGATTGTTTACATTGATGAAGTGGACAAGATAACTAAGAAG
Basic information
species | Glycine max |
transcript | GLYMA20G35600.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35600.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G33360.1 (Arabidopsis thaliana), 3'ss of exon 5
atctttgtcaaatttgtttttatacttctcagaagatatcttatgttgttactagttctacttgccatct-----cttgttatgacttttatttttctcatatagGCAGCAGAGTTCAATGTCCAAGCTGCTCAACAAGGGATTGTTTACATTGATGAAGTGGACAAGATAACTAAGAAG
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------------------gtaccacttctaaataagccccgactaatattcccagcac-accttccatcttgttgcattttagaagattcccttatgacttgtagGTCGCTGAGTTCAACGTGCAAGCAGCACAACAGGGAATAGTCTATATTGATGAAGTTGATAAGATAACTAAGAAG
upper sequence: GLYMA20G35600.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 5
atctttgtcaaatttgtttttatacttctcagaagatatcttatgttgtt-actagttctacttgccat----ctcttgt-tatg-acttttatttttctcatatagGCAGCAGAGTTCAATGTCCAAGCTGCTCAACAAGGGATTGTTTACATTGATGAAGTGGACAAGATAACTAAGAAG
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-------tattccttgtatttatttattttgtttgctattttactaagtttgcttgttcagtttatcacaaaactcatgcatgcatgcttttaaatttggcttatagGTTGCTGAGTTCAATGTACAAGCAGCTCAACAAGGGATGGTCTATATCGATGAAGTTGACAAGATAACTAAAAAG
upper sequence: GLYMA20G35600.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S171_84V6.1 (Physcomitrella patens), 3'ss of exon 5
-atctttgtcaaatt-tgtttttatacttctcagaagatatcttatgttgttactagttctacttgccatctcttgttatgacttttatttttctcatatagGCAGCAGAGTTCAATGTCCAAGCTGCTCAACAAGGGATTGTTTACATTGATGAAGTGGACAAGATAACTAAGAAG
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gataataatcaggttatgatgaaaaccaggtcttcatgtatctaatgattatgtttttgagactcgt--ttatttgttggttggctgaacgcattgttgcagGCAGCTGAATTCAATGTTCCAGCTGCTCAGCAGGGTATCGTGTACATTGATGAAGTGGACAAAATTACTAAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttactagttctacttgccatctcttgttatgacttttatttttctcatatagGCAGCAGAGTTCAATGTCCAAGCTGCTCAACAAGGGATTGTTTACATTGATGAAGTGGACAAGATAACTAAGAAG
cttttatttttctcat CT-rich tract
ttttatttttctcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atctttgtcaaatttgtttttatacttctcagaagatatcttatgttgttactagttctacttgccatctcttgttatgacttttatttttctcatatagGCAGCAGAGTTCAATGTCCAAGCTGCTCAACAAGGGATTGTTTACATTGATGAAGTGGACAAGATAACTAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - -tgttgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgccatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttatg