Sequence
atgc intronic sequence ATGC exonic sequencegtaagaaacaaatttgagctccttcttgtcatttttaactattaaaaagtaggtttcatcgctctctccctatctaagtgtaaatatgttgtgtcctccctcgtatatgtgtaacatgtgatgataaacacttttgaatgatgtagGTTCAAAATTTGATAGAAAGATGTCTTCAGTTGTACATGAACAGAGATGAGGTCGTGAAGACTCTCTTGACTCGTGCAAGGATAGACCCTGGATTTACAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G61700.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G61700.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 3
---------------gtaagaaacaaatttgagctccttcttgtcatttttaactatta-aaaagtaggtttcatcgctctctccctatcta--agtgtaaatatgttgtgtcctccctcgt---atatgtgtaacatg---tgatgataaacacttttgaatgatgtagGTTCAAAATTTGATAGAAAGATGTCTTCAGTTGTACATGAACAGAGATGAGGTCGTGAAGACTCTCTTGACTCGTGCAAGGATAGACCCTGGATTTACAA
| | | | ||||| || ||| ||| ||| ||| | | |||| ||| | || | || | | | | || | || ||| | || | |||| || || | | | |||||||||| ||||| ||||||||||| || ||||| || ||||| | |||||| || || || || || ||||||| |||| |||||| |||||||| ||||
gtaaggatatatattctttgctaaacctttgactagttttctgttattgcctacttttacgtgcacatcctatatcgtgtggattgtattttatagggatgatttttggaagctaatctgatctaatctgttttttttgcctttttgattaaatattctaacttttgtagGTTCAGAATTTAATAGAAAGATGCCTACAGTTATATATGAATAAAGATGAAGTGGTTAAAACACTACTGACTCGGGCAAAGATAGATCCTGGATTCACAA
upper sequence: AT3G61700.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 3
gtaagaaacaaatttgagctccttcttgtcatttttaactattaaaaagtaggtttcatcgctctctccctatctaagtgtaaatatgttgtgtcc-tccctcgtatatgtgtaacatgtgatgataaacacttttgaatgatgtagGTTCAAAATTTGATAGAAAGATGTCTTCAGTTGTACATGAACAGAGATGAGGTCGTGAAGACTCTCTTGACTCGTGCAAGGATAGACCCTGGATTTACAA
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-------------gtaagacattatttgc---tttctactaatggatttttttttttttttttgtgttgatctccaaaagggagctcaacaaatctgtttcttatgtcgggcttaataatttttgcaaaaactttcc-----tccagGTCCAGAATTTGATAGAACGGTGCCTACAGTTGTACATGAACAGGGATGAAGTGGTGAAGACCCTCTTGAGTCGTGCAAGGATAGATCCTGGATTTACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcctccctcgtatatgtgtaacatgtgatgataaacacttttgaatgatgtagGTTCAAAATTTGATAGAAAGATGTCTTCAGTTGTACATGAACAGAGATGAGGTCGTGAAGACTCTCTTGACTCGTGCAAGGATAGACCCTGGATTTACAA
gtgtaac putative branch site (score: 3)
atgataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaaacaaatttgagctccttcttgtcatttttaactattaaaaagtaggtttcatcgctctctccctatctaagtgtaaatatgttgtgtcctccctcgtatatgtgtaacatgtgatgataaacacttttgaatgatgtagGTTCAAAATTTGATAGAAAGATGTCTTCAGTTGTACATGAACAGAGATGAGGTCGTGAAGACTCTCTTGACTCGTGCAAGGATAGACCCTGGATTTACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA