Sequence
atgc intronic sequence ATGC exonic sequencegtatgttagacatttcttgattctcctcccaagattaacttgtaggctttttcctcccttttttttgacttgaaacgtatttttgcagTCACTCATCTCCACTCAATCAAGACTTGTGATTACTTCATCAGACAATAACACCCCAGTGGATTCTGTACTTTCCTCTGATTCAATTTGCATCAATGTGT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G21930.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G21930.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G05890.1 (Glycine max), 3'ss of exon 5
-----gtatgtta-gacatttcttgattctcctc--ccaagattaacttgtaggcttt-ttcctccctt---ttttttgact-tgaaacgtatttttgcagTCACTCATCTCCACTCAATCAAGACTTGTGATTACTTCATCAGACAATAACACCCCAGTGGATTCTGTACTTTCCTCTGATTCAATTTGCATCAATGTGT
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tatagttttactgtgacgaatggcagttctttagagtcatgctttacc-gtaggtttaattactgtcttacatgattacactgtggtgaatgttttgccagTCACTGATATCCACTCAGTCAAGACTTGTGATTACTTCAACAGAAGGTTCACCTTCTACTGACACTGTGCTTTGCTCTGATGCAATTTGTGTTGAAGTCC
upper sequence: AT5G21930.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA04G05900.1 (Glycine max), 3'ss of exon 3
-----------gtatgttagacatttctt--gattctcctcccaagattaacttgtaggctttttcctcccttttttttgacttgaaacgtatttttgcagTCACTCATCTCCACTCAATCAAGACTTGTGATTACTTCATCAGACAATAACACCCCAGTGGATTCTGTACTTTCCTCTGATTCAATTTGCATCAATGTGT
||| | |||||||| || || | || || | |||| || | | || || | |||| |||||||| || || ||||| ||||||||||||||||||||| |||| | | | || |||| |||||||||||| ||||||| | | ||
atagttttgctgtaacaatggcatttctttagagtcatattttaatgcaggttta-attattttgtcttacatgattacactgtggtgaatgttttgccagTCACTGATATCTACTCAGTCAAGACTTGTGATTACTTCAACAGAAGGTTCACCTTCTACTGACACTGTGCTTTCCTCTGATGCAATTTGTGTTGAAGTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaacttgtaggctttttcctcccttttttttgacttgaaacgtatttttgcagTCACTCATCTCCACTCAATCAAGACTTGTGATTACTTCATCAGACAATAACACCCCAGTGGATTCTGTACTTTCCTCTGATTCAATTTGCATCAATGTGT
tattttt CT-rich tract
ttttttttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttagacatttcttgattctcctcccaagattaacttgtaggctttttcctcccttttttttgacttgaaacgtatttttgcagTCACTCATCTCCACTCAATCAAGACTTGTGATTACTTCATCAGACAATAACACCCCAGTGGATTCTGTACTTTCCTCTGATTCAATTTGCATCAATGTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA