Sequence
atgc intronic sequence ATGC exonic sequence...cacaaatcttcacatgcttttctgaagttacatatgtttatgctataatccaagtcaaaaggcaaaactttcaagtacttatgaaacaatttatgtacagGACCTTGTAGGACCTTATTGGTCTCTCAGAGCTGCTTTAGGGCCTCTTTTGGAAACTCTTATTATACTTGATAGGTTATTGTTTCTTCAAGAGCAAGGCA
Basic information
species | Glycine max |
transcript | GLYMA08G18450.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G18450.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G114930_T01 (Zea mays), 3'ss of exon 11
--cacaaatctt-cacatgcttttctgaagttacatatgtttatgctataatccaagtcaaaaggcaaaactttcaagtacttatgaaacaatttatgtacagGACCTTGTAGGACCTTATTGGTCTCTCAGAGCTGCTTTAGGGCCTCTTTTGGAAACTCTTATTATACTTGATAGGTTATTGTTTCTTCAAGAGCAAGGCA
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gattgaaatatgactgctccccccctgatattttagcaccaaaagatacactctgtatcat--gtcaaatttctaatctggctgtttttcttatt-catgaagGAATATATAGGTCCCTTTTGGTGCCTTCGAGCTGCTTTAGGTCCACTGGTGGAAACATATATTTTACTTGATCGGTTATTGTATCTTCAAGAGCGAAGCA
upper sequence: GLYMA08G18450.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G114930_T02 (Zea mays), 3'ss of exon 10
-cacaaatcttcacatgcttttctgaagttacatatgtttatgctataatccaagtcaaaaggcaaaactttcaagtacttatgaaacaatttatgtacagGACCTTGTAGGACCTTATTGGTCTCTCAGAGCTGCTTTAGGGCCTCTTTTGGAAACTCTTATTATACTTGATAGGTTATTGTTTCTTCAAGAGCAAGGCA----------
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tgactgctccccccctgatattttagcaccaaa-agatacactctgta--tcatgtcaaatttctaatctggctgtttttctt------attcatgaa--ggaatatatagGTCCCTTTTGGTGCCTTCGAGCTGCTTTAGGTCCACTGGTGGAAACATATATTTTACTTGATCGGTTATTGTATCTTCAAGAGCGAAGCAACCTAGTTGA
upper sequence: GLYMA08G18450.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv19s0027g00240.t01 (Vitis vinifera), 3'ss of exon 10
cacaaatcttcacatgcttttctgaagttacatatgtttatgctat--aatccaagtcaaaaggcaaaactttcaagtacttatgaa----acaatttatgtacagGACCTTGTAGGACCTTATTGGTCTCTCAGAGCTGCTTTAGGGCCTCTTTTGGAAACTCTTATTATACTTGATAGGTTATTGTTTCTTCAAGAGCAAGGCA
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---agattcttccttgtggaaat-aaataaca-gtgtgcatgccattcactttatttatataagtcagctgggtaagcactgattaacatcacaattc-catgcagGAATTTATTGGACCTTATTGGTCTCTTCGTGCTGCTTTAGGACCTCTTTTGGAAACACTTATTCTGCTTGATAGATTATTGTTCCTCCAAGAGCAAGGCAMapped 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|15203432|gb|BI426200.1|BI426200EST: CACAGGATATAAACCTTCAAGGCATATGGAAGGAAGCAGAACCATTTGCC GACCTTGTAGGACCTTATTGGTCTCTCAGAGCTGCCTTAGGGCCTCTTTTG
genomic: CACAGGATATAAACCTTCAAGGCATATGGAAGGAAGCAGAACCATTTGCCgtatgtcaat ... ttatgtacagGACCTTGTAGGACCTTATTGGTCTCTCAGAGCTGCTTTAGGGCCTCTTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatccaagtcaaaaggcaaaactttcaagtacttatgaaacaatttatgtacagGACCTTGTAGGACCTTATTGGTCTCTCAGAGCTGCTTTAGGGCCTCTTTTGGAAACTCTTATTATACTTGATAGGTTATTGTTTCTTCAAGAGCAAGGCA
ttatgaaacaatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacaaatcttcacatgcttttctgaagttacatatgtttatgctataatccaagtcaaaaggcaaaactttcaagtacttatgaaacaatttatgtacagGACCTTGTAGGACCTTATTGGTCTCTCAGAGCTGCTTTAGGGCCTCTTTTGGAAACTCTTATTATACTTGATAGGTTATTGTTTCTTCAAGAGCAAGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - -acatgct
- - - - - - - - - - - - - - - - - - tttatgc
- - - - - - - - - - - - - - - - - - - - - - - - - caagtca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaacaat