Sequence
atgc intronic sequence ATGC exonic sequencegtaattctctctccttttgccaatagatttgaagaagtctgtaccagtgattgaatttgacttgagcagcaaccaaatttaatacactgtgattgccctgttcttctctttggtgtagTGATGTCAGAGGATATGGTGAAGGATGGGTATGAGGACATCATGAATGTTGATATCTCTTCAGTGGCTATTGAGATGATGCAAACCAAATATGCATCTGT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G60910.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G60910.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA09G36070.1 (Glycine max), 3'ss of exon 1
gtaattctctctccttttgccaatagatttgaagaagtctgtaccagtgattgaatttgacttgagcagcaaccaaatttaatacactgtgattgccctgttcttctctttggtgtagTGATGTCAGAGGATATGGTGAAGGATGGGTATGAGGACATCATGAATGTTGATATCTCTTCAGTGGCTATTGAGATGATGCAAACCAAATATGCATCTGT
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---------------gttggtactacaattcccct--tctctcccgtctcttttatttagggtttct--taatcattttctctaaacta-aatggaagaatactgttgtattttacagTTATGTCAGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTGATATTTCTTCAATTGCAATTGACATGATGAGTAGAAAATATGAGCACAT
upper sequence: AT3G60910.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA12G01270.1 (Glycine max), 3'ss of exon 1
gtaattctctctccttttgccaatagatttgaagaagtctgtaccagtgattgaatttgacttgagcagcaaccaaatttaatacactgtgattgccctgttcttctctttggtgtagTGATGTCAGAGGATATGGTGAAGGATGGGTATGAGGACATCATGAATGTTGATATCTCTTCAGTGGCTATTGAGATGATGCAAACCAAATATGCATCTGT
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---------------gttggtactacaattccccttctct---cccttcttttatttagggtt---tcttaatcattttctcttcacta-aatggaagaatactgtcgtattttacagTTATGTCTGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTGATATTTCTTCTGTTGCAATTGACATGATGAGAACAAAATATGAGTACAT
upper sequence: AT3G60910.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv13s0158g00120.t01 (Vitis vinifera), 3'ss of exon 1
gtaattctctctccttttgccaatagatttgaagaagtctgtaccagtgattgaatttgacttgagcagcaaccaaatttaatacactgtgattgccctgttcttctctttggtgtagTGATGTCAGAGGATATGGTGAAGGATGGGTATGAGGACATCATGAATGTTGATATCTCTTCAGTGGCTATTGAGATGATGCAAACCAAATATGCATCTGT
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--------tgacaattgcagcattattgctgtaagatacttctacagcctttctacttg-ctaacaaagcttctgaaggt------tttttttttttttgtctttaacttta---tagTTATGTCAGAGGACATGGTCAAGGATGGGTATGAAGAAATAATGAACATTGACATTTCATCAGTTGCCATTGAGATGATGAGAAGGAAACATGAGCACATMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|86057616|gb|DR353373.1|DR353373EST: CTTCGTCTCTACTTCTTCACGAGTCCTCATGGTTGGCTGTGGCAACTCCC TGATGTCAGAGGATATGGTGAAGGATGGGTATGAGGACATCATGAATGTTG
genomic: CTTCGTCTCTACTTCTTCACGAGTCCTCATGGTTGGCTGTGGCAACTCCCgtaattctct ... tttggtgtagTGATGTCAGAGGATATGGTGAAGGATGGGTATGAGGACATCATGAATGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagcagcaaccaaatttaatacactgtgattgccctgttcttctctttggtgtagTGATGTCAGAGGATATGGTGAAGGATGGGTATGAGGACATCATGAATGTTGATATCTCTTCAGTGGCTATTGAGATGATGCAAACCAAATATGCATCTGT
atttaat putative branch site (score: 4)
ttgccctgttcttctc putative PPT
aaccaaatttaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattctctctccttttgccaatagatttgaagaagtctgtaccagtgattgaatttgacttgagcagcaaccaaatttaatacactgtgattgccctgttcttctctttggtgtagTGATGTCAGAGGATATGGTGAAGGATGGGTATGAGGACATCATGAATGTTGATATCTCTTCAGTGGCTATTGAGATGATGCAAACCAAATATGCATCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG