Sequence
atgc intronic sequence ATGC exonic sequence...atataattgcaattgtgatcgtgagcgtaattcaaaaccttggttaatgatattgttattagtattatgtttttaattgaatgtggttatggtggtgcagGTAAGGCAGTGTTTGGAGAGAAGGAGTGGTACTTTTTTAGCCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTCGCGGGTTCTGGGTA
Basic information
species | Glycine max |
transcript | GLYMA06G38410.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G38410.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0014g03290.t01 (Vitis vinifera), 3'ss of exon 1
atataattgcaattgtgatcgtgagcgt-aattcaaaaccttggttaatgatattgttattagtattatgtttttaattgaatgtggtta-tggtggtgcagGTAAGGCAGTGTTTGGAGAGAAGGAGTGGTACTTTTTTAGCCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTCGCGGGTTCTGGGTA
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--------------------gtgagtattgattcgaaaacctgcgttttc-tgcttcaatttggatt-tgtttctgatc--atttatttacttgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA
upper sequence: GLYMA06G38410.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S259_67V6.1 (Physcomitrella patens), 3'ss of exon 1
atataattgcaattgtgatcgtgagcgtaattcaaaaccttggttaatgatattgttattagtattatgtttttaa----ttgaatgtggttatggtggtgcagGTAAGGCAGTGTTTGGAGAGAAGGAGTGGTACTTTTTTAGCCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTCGCGGGTTCTGGGTA
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---ttgttgaaac-atagcagagcggcctactgattttccgggaatctgtaaaagttcaagagcgtataaattaaaagaatcgattctctactttgatttgcagGCAAGGCTATTTTTGGAGAAGGAGAGTGGTATTTTTTCAGCCCAAGAGACAGGAAATACCCAAATGGAGCTCGCCCTAACCGAGCTGCAGCTTCCGGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgatattgttattagtattatgtttttaattgaatgtggttatggtggtgcagGTAAGGCAGTGTTTGGAGAGAAGGAGTGGTACTTTTTTAGCCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTCGCGGGTTCTGGGTA
ttttaat putative branch site (score: 3)
tattgttattagtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atataattgcaattgtgatcgtgagcgtaattcaaaaccttggttaatgatattgttattagtattatgtttttaattgaatgtggttatggtggtgcagGTAAGGCAGTGTTTGGAGAGAAGGAGTGGTACTTTTTTAGCCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTCGCGGGTTCTGGGTA
- - - - - - - - - -cgtgagc
- - - - - - - - - - - - - - - - caaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgtg