Sequence
atgc intronic sequence ATGC exonic sequencegtcttttatagtttcttgtctcaaaaatattaatctattctctatcatgatttcctctaaacctctggctttggtctgttttagGGAAAATGCAAACGAAATAAAAGCCAAATTCATCATTGAAGGTGCTAATCACCCAACTGATCCTGAGGCTGACGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G03910.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 6
----------------gtcttttatagtttcttgtctcaaaaatattaatctattctctatcatgatttcctctaaacctctggctttggtctgttttagGGAAAATGCAAACGAAATAAAAGCCAAATTCATCATTGAAGGTGCTAATCACCCAACTGATCCTGAGGCTGACGAG
|| | | | | | |||| | | | | | | | ||| | | | | || | | ||| |||||||||||||| ||||| || |||||||| || | |||| ||||||||||||||||| || |||||||| |||
gtctcctcatataagcaatagttgaattatataataaggaaaaggtctaaggctaatttgtttttattataattttatccatcttttggtacggttgaagGGAAAATGCAAATGAAATCAAGGCCAAATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAGGCTGATGAG
upper sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA16G04560.2 (Glycine max), 3'ss of exon 7
-----------gtcttttatagtttcttgtctcaaaaatattaatctattct-ctatcatgatttcctctaaac---ctctggctttggtctgtttta-gGGAAAATGCAAACGAAATAAAAGCCAAATTCATCATTGAAGGTGCTAATCACCCAACTGATCCTGAGGCTGACGAG
| || || |||| | || || ||| | | ||| || | | | ||| || |||||| || || | ||||||||||||| ||||| || |||||||| || | |||| ||||||||||||||||| || || ||||| |||
tgatataagcaatattctaaagttgaattatataataaggaaaatgtctaaagctaatttgttcttttataattttattcatcttttggtatggttgaagGGAAAATGCAAATGAAATCAAGGCCAAATTTATTGTGGAAGCAGCTAATCACCCAACTGACCCAGAAGCTGATGAG
upper sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 8
-------gtcttttatagtttcttgtc-tcaaaaatattaatctatt---ctctatcatgatttcct---ctaaacctc-tggctttggtctgttt-tagGGAAAATGCAAACGAAATAAAAGCCAAATTCATCATTGAAGGTGCTAATCACCCAACTGATCCTGAGGCTGACGAG
| | | | | || | | ||| || || ||||| | | | ||||| | | ||||||| |||| ||||||||||||||| ||||| ||||||||||| || ||||||| || || || || || || ||||| || || |||
ttgggcattgcaacaaaatagtcaaccatcctaggttttagctcatgatgcttaatcataagattcataactaaatgttgttcttttggtccgtttgtagGGAAAATGCAAATGAAATTAAAGCCAAATTTATTATTGAAGCAGCCAACCATCCTACAGACCCTGAAGCAGATGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaatctattctctatcatgatttcctctaaacctctggctttggtctgttttagGGAAAATGCAAACGAAATAAAAGCCAAATTCATCATTGAAGGTGCTAATCACCCAACTGATCCTGAGGCTGACGAG
tctgtttt CT-rich tract
atgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcttttatagtttcttgtctcaaaaatattaatctattctctatcatgatttcctctaaacctctggctttggtctgttttagGGAAAATGCAAACGAAATAAAAGCCAAATTCATCATTGAAGGTGCTAATCACCCAACTGATCCTGAGGCTGACGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG