Sequence
atgc intronic sequence ATGC exonic sequence...aaggattgtaatttgtaactatagtttgtcttcttgtttgcctgtatttatatgtgagggcttattaattgtttcacacttgcttctatgctatttgaagGCTTGGATTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGAAGAACTCATATCCTTTCTAAGTACACTGCCAAAGG
Basic information
species | Glycine max |
transcript | GLYMA01G44190.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G44190.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G10030.1 (Arabidopsis thaliana), 3'ss of exon 8
aaggattgtaatttgtaactatagtttgtcttcttgtttgcctgtatttatatgtgagggcttattaattgtttcacacttgcttctatgctatttgaagGCTTGGATTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGAAGAACTCATATCCTTTCTAAGTACACTGCCAAAGG
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--------------gtaagtgtttatccgatgtctatatcgcaatgttggt-----agggtttat--gttaaggc-ccctaaattatacccaattt--agGCTTGGGTATTGGATGCTACTCCTGGTAAAGTTCGTGCAGGAGGAGATGGAGAAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAG
upper sequence: GLYMA01G44190.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0001g06010.t01 (Vitis vinifera), 3'ss of exon 8
--aaggattgtaatttgtaactatagtttgtcttcttgtttgc-ctgtatttatatgtgagggcttattaattgtttcacacttgcttctatgctatttgaagGCTTGGATTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGAAGAACTCATATCCTTTCTAAGTACACTGCCAAAGG
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ccagaactggtaatcttca--tgaaatttgaattgtggttcaagcaattatgatctattattcttttttttttttttta-attttataatctatttttattagGTTTGGGTTCTAGATGCAACTCCTGGGAAAGTTCGTCCTGGTGGAGATGGAGAGGATCATCCAGAGGAACTAATATCTTTCCTTAGTAAAATGCCCAATG
upper sequence: GLYMA01G44190.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ15850 (Selaginella moellendorffii), 3'ss of exon 6
aaggattgtaatttgtaactatagtttgtcttcttgtttgcctgtatttatatgtgagggcttattaattgtttcacacttgcttctatgctatttgaagGCTTGGATTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGAAGAACTCATATCCTTTCTAAGTACACTGCCAAAGG
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--------------------gtaatgc-tgttcttagttttttgttcttgcttttg-----ttttaagttctttctccttttcctttttcc-------agGCATGGATCCTGGATGCAACACCGGGAGAAATACGAGCAGGCGGAGGTGGTGAAGATCATCCAGCGGAACTCATTGAAGCCTTGCGAAGATTGCCTGCTC
upper sequence: GLYMA01G44190.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ32975 (Selaginella moellendorffii), 3'ss of exon 6
aaggattgtaatttgtaactatagtttgtcttcttgtttgcctgtatttatatgtgagggcttattaattgtttcacacttgcttctatgctatttgaagGCTTGGATTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGAAGAACTCATATCCTTTCTAAGTACACTGCCAAAGG
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--------------------gtaatgt-tgttcttagttttttgttcttgcttttg-----ttttaagttctttctccttttcctttttcc-------agGCATGGATCCTGGATGCAACACCGGGAGAAGTACGAGCACGCGGAGGTGGTGAAGATCATCCAGCGGAACTCATTGAAGCCTTGCGAAGATTGCCTGCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttatatgtgagggcttattaattgtttcacacttgcttctatgctatttgaagGCTTGGATTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGAAGAACTCATATCCTTTCTAAGTACACTGCCAAAGG
tattaat putative branch site (score: 2)
ttattaattgtttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaggattgtaatttgtaactatagtttgtcttcttgtttgcctgtatttatatgtgagggcttattaattgtttcacacttgcttctatgctatttgaagGCTTGGATTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGAAGAACTCATATCCTTTCTAAGTACACTGCCAAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - -gtgaggg