Sequence
atgc intronic sequence ATGC exonic sequencegtatggatctaaataatctcttctttctttctgtcattttcgtatctctaccatattgtattctcttctacatgcatgtgataattatagtttcataatttctatagTCAGATGAAAATAAGGACTGGATTTCGTCTACCTGTAATTATGGTGAATCATTTATATCTTCCATAAGAAGGGGAAATGTGCATGCAGTTCAATTCCATC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G26900.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G26900.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G10460.1 (Glycine max), 3'ss of exon 5
-gtatggatctaaataatctcttctttctttctgtcattttcg-tatctctaccatattgtattctcttctacatgcatgtga-taattatagtttcataatttctatagTCAGATGAAAATAAGGACTGGATTTCGTCTACCTGTAATTATGGTGAATCATTTATATCTTCCATAAGAAGGGGAAATGTGCATGCAGTTCAATTCCATC
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tgtatgtttccacttt-tctttgaaatcttcttgttgccttggctgtcacattcttactctatatattcatgaaagtgtttaagtaatctgacttttttcattttctcaGTCAGATGACAACAATGAGTGGATATCCTCCACCTGTGACTATGGTGACAAATTTATAGCATCTATTAGAAGAGGAAATGTGCATGCAGTTCAATTCCAT-
upper sequence: AT4G26900.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G12920.1 (Glycine max), 3'ss of exon 5
gtatggatctaaataatctcttctttctttctgtcattttcg-tatctctaccatattgtattctcttctacatgcatgtga-taattatagtttcataatttctatagTCAGATGAAAATAAGGACTGGATTTCGTCTACCTGTAATTATGGTGAATCATTTATATCTTCCATAAGAAGGGGAAATGTGCATGCAGTTCAATTCCATC
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gtatgtttccacttt-tctttgaaatctccttgttgccttggctgtcacgttcttactctatatattcatgaaagtgtttaagtaatctgacttttttcattttctcagTCAGATGACAACAATGAGTGGATATCCTCCACCTGTGACTATGGTGACAAATTTATAGCATCTATTAGAAGAGGAAATGTGAATGCGGTTCAATTCCATC
upper sequence: AT4G26900.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv19s0090g00810.t01 (Vitis vinifera), 3'ss of exon 4
gtatggatctaaataatctcttctttctttctgtcattttcgtatctctaccatattgtattctcttctacatgca-tgtgataattatagtttcataattt---ctatagTCAGATGAAAATAAGGACTGGATTTCGTCTACCTGTAATTATGGTGAATCATTTATATCTTCCATAAGAAGGGGAAATGTGCATGCAGTTCAATTCCATC
|| | | | || || | | || | ||| || || | | | | | | |||| | | | || |||| | |||| || |||||| |||| || || || ||| |||| ||||| || ||||||||||| || ||| | || | |||||||||||||||||||||||||| || ||||
------------gtatgttttcccttgcttgttgctcttccatatttcaactaactatttctttgacttgcatgaagttccctgatctaagttcctctatttttcctgtagTCAAATGATAACAAAGAGTGGGTTTCATCTACTTGCAATTATGGTGATAATTTCATAGCATCAGTCAGAAGGGGAAATGTGCATGCAGTTCAGTTTCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattgtattctcttctacatgcatgtgataattatagtttcataatttctatagTCAGATGAAAATAAGGACTGGATTTCGTCTACCTGTAATTATGGTGAATCATTTATATCTTCCATAAGAAGGGGAAATGTGCATGCAGTTCAATTCCATC
tttctat CT-rich tract
tgataattatagtttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggatctaaataatctcttctttctttctgtcattttcgtatctctaccatattgtattctcttctacatgcatgtgataattatagtttcataatttctatagTCAGATGAAAATAAGGACTGGATTTCGTCTACCTGTAATTATGGTGAATCATTTATATCTTCCATAAGAAGGGGAAATGTGCATGCAGTTCAATTCCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG