Sequence
atgc intronic sequence ATGC exonic sequencegtgcatataatacattcaccattcgatttcgagttttcagaagcaaatgtctctaacttattttcctaacacagATGGTTCTCGACCAGCAAGCGCTTCCTTGTCTTTTGAACCTTCTAAAAAACAATTACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCCAACA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G02150.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 7
-------------------------gtgcatataatacattcaccattcgatttcgagtttt---cagaagca-aatgtctctaacttattttcctaacacagATGGTTCTCGACCAGCAAGCGCTTCCTTGTCTTTTGAACCTTCTAAAAAACAATTACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCCAACA
| ||| | | | || || | | | || ||| ||| || || | | || | ||| || | || | ||| |||||||| ||||||||||| | | | ||||||||||| || ||||||||||| ||||||||||| ||||| ||||
ggacattgctactgaaacgacatttttttttatgtttc-tacatgccctagttgtgcatcctgaacaaaagtttgatgcttccaatctttcctctt--ttcagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACATAATTACAAGAAAAGCATCAAGAAGGAGGCTTGCTGGACCATCTCAAACA
upper sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S165_54V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------------gtgc--atataatacattcaccattcgatttcgagttttcagaagcaaatgtctctaac---ttattttcctaacacagATGGTTCTCGACCAGCAAGCGCTTCCTTGTCTTTTGAACCTTCTAAAAAACAATTACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCCAACA
|| | || | || || ||| || | | | || || | || || || | ||| | | || | | || || ||||| |||||| | ||||| | |||||| ||||||| ||||||||||| ||||| || |||||||| ||||| |
gacttctattttataccactcgtcccagaatggttcaacttgtgttgactttgttcttgcttgtaactaacatccttcttgtattgttgtcttggatcagTTCATCATCAATAATCAGGCCCTTCCCTGTCTTCTTGCTCTTCTGACCAACAATCACAAGAAAAGTATCAAGAAAGAAGCCTGTTGGACTATTTCCAATA
upper sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S165_51V6.1 (Physcomitrella patens), 3'ss of exon 7
--------------------------------------------------------------------gtgcatataatacattcaccattcg--atttcgagttt-------tcagaagcaaatgtctctaacttattttcc-taacacagATGGTTCTCGACCAGCAAGCGCTTCCTTGTCTTTTGAACCTTCTAAAAAACAATTACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCCAACA
|| ||| ||| || || | ||||| || ||| || | | | | | ||| | | | ||| | | ||||| || || | || || || | || | | ||||| |||||||||| || ||||| ||||| || ||||||||||||||||
gtatccatacaagatctgaaatcattgcttcgctgtttcttttcaacatttctgcatcaaagttgttcatgtgtatgttacggtcgtcacccattatttcactttccatcccgtcatcagtagtgtttacgtgcgtgtttactgtcgcgcagTTCATCATCGACTGCCAGGCCTTGCCCTGCCTGCTCGCACTATTGACCAACAACCACAAGAAGAGCATTAAGAAAGAAGCATGTTGGACTATCTCCAACA
upper sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S63_171V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------------------------------------------------------------gtgcatataatacattcaccattcgatttcgagttttcagaagcaaatgtctctaacttattttcc---taacacagATGGTTCTCGACCAGCAAGCGCTTCCTTGTCTTTTGAACCTTCTAAAAAACAATTACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCCAACA
|| | | | ||| | ||| |||| || |||||| |||| || | | | ||| | | | || ||||| || || ||||| | || || | ||||| |||||||||||||||| |||||||| |||||||| || |||||||
gtaatttctcgatgcattctggccttttccatgtttttaagcctttgtccatttcgaccttcttccagcgttgtcctggcaaagagtccactt--cttccagttcgttgat---aatgtcaactgcttacgtttcccgttgcgcagTTCATCATTGATTGTCAAGCCCTACCGTGTCTGCTCGCACTACTCACCAACAACCACAAGAAGAGTATCAAAAAGGAAGCATGCTGGACCATTTCCAACA
upper sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S43_141V6.1 (Physcomitrella patens), 3'ss of exon 8
-----------------------gtgcatataatacattcaccattcgatttcgagttttcagaa---gcaaatgtctctaacttattttcctaacacagATGGTTCTCGACCAGCAAGCGCTTCCTTGTCTTTTGAACCTTCTAAAAAACAATTACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCCAACA
| || ||| || | | | | || || | | | || || | | | ||| | | || || | || || || || |||||| | ||||| | ||||| ||||||| || || || |||||||| |||||||||||||||||||
cctctttttggtagcaatacgtgttttttaaaattcagtaaggaaataagggggacggcctgaaatttgtgtactttcctctattgctgttttgtatcagTTCATCATCAACAATCAGGCCCTCCCGTGTCTTCTCGCTCTTCTCACCAACAACCACAAGAAAAGCATTAAAAAGGAAGCCTGCTGGACTATCTCCAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattcgatttcgagttttcagaagcaaatgtctctaacttattttcctaacacagATGGTTCTCGACCAGCAAGCGCTTCCTTGTCTTTTGAACCTTCTAAAAAACAATTACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCCAACA
tcctaac putative branch site (score: 1)
cttattttcct CT-rich tract
taacttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcatataatacattcaccattcgatttcgagttttcagaagcaaatgtctctaacttattttcctaacacagATGGTTCTCGACCAGCAAGCGCTTCCTTGTCTTTTGAACCTTCTAAAAAACAATTACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCCAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA