Sequence
atgc intronic sequence ATGC exonic sequencegtcatatcttggcctaagaacatatctacttttacattttcatttgcattagttatggtggtaaaaaaataaaacttactgattcgcttttcttgagcaaattgtgtattgcccttgcataatacttttcttgttatgtattctgctacaaaagATCAAACGTGGTAGAAAGCCAGATGGAATGTGCCTTGTTGTTGGATCTTGTGCTCATGGGTTTAAAGAGAACTCATCAAGCGACGTTATATATAGCAGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G32640.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G32640.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM5G851815_T02 (Zea mays), 3'ss of exon 7
gtcatatcttggcctaagaacatatctacttttacattttcatttgcattagttatggtggtaaaaaaataaaacttactgattcgcttttcttgagcaaattgtgtattgcccttgcataatacttttcttgttatgtattctgctacaaaagATCAAACGTGGTAGAAAGCCAGATGGAATGTGCCTTGTTGTTGGATCTTGTGCTCATGGGTTTAAAGAGAACTCATCAAGCGACGTTATATATAGCAGTT
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-----------------------------------aatctgatttgcttctatta--gtagtatatccat----cttaccgttgcaaccatttc---ctgattccatctacaagttagttacgactcttctgtccttgtgc----------aagATCCGGTCTGGTAGAAAACCAGATGGAATGTGCCTTGTTGTTGGTGCTTGCGCTCATGGATTCGAAAAAAATACAACAAGTGATATTATTTTCAGTAGCT
upper sequence: AT2G32640.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv12s0059g01150.t01 (Vitis vinifera), 3'ss of exon 7
gtcatatcttggcctaagaacatatctacttttacattttcatttgcattagttatggtggtaaaaaaataaaacttactgattcgcttttcttgagcaaattgtgtattgcccttgcataatact-tttcttgttatgtattctgctacaaaagATCAAACGTGGTAGAAAGCCAGATGGAATGTGCCTTGTTGTTGGATCTTGTGCTCATGGGTTTAAAGAGAACTCATCAAGCGACGTTATATATAGCAGTT
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---------------------------------------------gctttactaatc-tagtgttagatcaaagattatc------ctacttgggaaataagcatgtctacacatggtccgaaaccgtttgttaatgtaaaatatcttaca---gATGAGGGGTGGAAGGAAGCCAGATGGAGTTTGCCTTGTTGTTGGTTCTTGTGCACGTGGTTTTACAAATAACTCAACAAGTGATGTCATATACAGTAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattgtgtattgcccttgcataatacttttcttgttatgtattctgctacaaaagATCAAACGTGGTAGAAAGCCAGATGGAATGTGCCTTGTTGTTGGATCTTGTGCTCATGGGTTTAAAGAGAACTCATCAAGCGACGTTATATATAGCAGTT
ttctgct CT-rich tract
ataatacttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatatcttggcctaagaacatatctacttttacattttcatttgcattagttatggtggtaaaaaaataaaacttactgattcgcttttcttgagcaaattgtgtattgcccttgcataatacttttcttgttatgtattctgctacaaaagATCAAACGTGGTAGAAAGCCAGATGGAATGTGCCTTGTTGTTGGATCTTGTGCTCATGGGTTTAAAGAGAACTCATCAAGCGACGTTATATATAGCAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA